Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 23 of 135
Found at i:6375384 original size:14 final size:14
Alignment explanation
Indices: 6375365--6375397 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
6375355 CATTATTGAA
6375365 TTTAAATTTAAATT
1 TTTAAATTTAAATT
*
6375379 TTTAAATTTTAATT
1 TTTAAATTTAAATT
6375393 TTTAA
1 TTTAA
6375398 CATTGATTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TTTAAATTTAAATT
Found at i:6375757 original size:21 final size:22
Alignment explanation
Indices: 6375713--6375764 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
6375703 AAAAATGAAT
*
6375713 TTTACATA-AAATTCTAAAATA
1 TTTAAATATAAATTCTAAAATA
*
6375734 TTTAAATATAAATTTTAAAA-A
1 TTTAAATATAAATTCTAAAATA
6375755 TTTAAA-ATAA
1 TTTAAATATAA
6375765 TATAAAATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 4 0.14
21 14 0.50
22 10 0.36
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTAAATATAAATTCTAAAATA
Found at i:6375913 original size:20 final size:18
Alignment explanation
Indices: 6375888--6375949 Score: 54
Period size: 20 Copynumber: 3.2 Consensus size: 18
6375878 AAAAAAATTC
6375888 TAAAAATTAAAAACAATAAA
1 TAAAAATT-AAAA-AATAAA
*
6375908 TAAAAATGTAAAAGAATAGA
1 TAAAAAT-TAAAA-AATAAA
*
6375928 -AAAAGTTCAAAAAATAAA
1 TAAAAATT-AAAAAATAAA
6375946 TAAA
1 TAAA
6375950 GCCTAGAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
18 6 0.17
19 12 0.34
20 16 0.46
21 1 0.03
ACGTcount: A:0.71, C:0.03, G:0.06, T:0.19
Consensus pattern (18 bp):
TAAAAATTAAAAAATAAA
Found at i:6377696 original size:20 final size:21
Alignment explanation
Indices: 6377671--6377710 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
6377661 TTTTCAATGA
6377671 ATTTTTATTTATA-AAATTAG
1 ATTTTTATTTATATAAATTAG
*
6377691 ATTTTTATTTTTATAAATTA
1 ATTTTTATTTATATAAATTA
6377711 AATAAAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (21 bp):
ATTTTTATTTATATAAATTAG
Found at i:6378576 original size:24 final size:24
Alignment explanation
Indices: 6378548--6378598 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
6378538 AGAAATAATC
* * *
6378548 TTTCAGTTAAATTCTGTTTATTTG
1 TTTCAATTAAACTCTATTTATTTG
6378572 TTTCAATTAAACTCTATTTATTTG
1 TTTCAATTAAACTCTATTTATTTG
6378596 TTT
1 TTT
6378599 TAGTCAAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.10, G:0.08, T:0.59
Consensus pattern (24 bp):
TTTCAATTAAACTCTATTTATTTG
Found at i:6378607 original size:24 final size:24
Alignment explanation
Indices: 6378564--6378610 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
6378554 TTAAATTCTG
*
6378564 TTTATTTGTTTCAATTAAACTCTA
1 TTTATTTGTTTCAATCAAACTCTA
* *
6378588 TTTATTTGTTTTAGTCAAACTCT
1 TTTATTTGTTTCAATCAAACTCT
6378611 TATTAGTGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.06, T:0.55
Consensus pattern (24 bp):
TTTATTTGTTTCAATCAAACTCTA
Found at i:6378705 original size:13 final size:13
Alignment explanation
Indices: 6378687--6378711 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6378677 ACCTTAGAAA
6378687 ATACACCCATTAG
1 ATACACCCATTAG
6378700 ATACACCCATTA
1 ATACACCCATTA
6378712 AAGTTTATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.32, G:0.04, T:0.24
Consensus pattern (13 bp):
ATACACCCATTAG
Found at i:6382385 original size:8 final size:8
Alignment explanation
Indices: 6382372--6382396 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
6382362 ATTTGTTTGT
6382372 TCAATTTC
1 TCAATTTC
6382380 TCAATTTC
1 TCAATTTC
6382388 TCAATTTC
1 TCAATTTC
6382396 T
1 T
6382397 TCCACTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (8 bp):
TCAATTTC
Found at i:6396177 original size:23 final size:22
Alignment explanation
Indices: 6396151--6396196 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
6396141 TACAATATTT
6396151 TTAAAAA-TATTAAAAATTAAAAA
1 TTAAAAAGTA-TAAAAA-TAAAAA
6396174 TTAAAAAGTATAAAAATAAAAA
1 TTAAAAAGTATAAAAATAAAAA
6396196 T
1 T
6396197 GTATATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 7 0.32
23 13 0.59
24 2 0.09
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (22 bp):
TTAAAAAGTATAAAAATAAAAA
Found at i:6396178 original size:14 final size:15
Alignment explanation
Indices: 6396154--6396196 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
6396144 AATATTTTTA
6396154 AAAATATTAAAAAT-T
1 AAAA-ATTAAAAATAT
6396169 AAAAATTAAAAAGTAT
1 AAAAATTAAAAA-TAT
6396185 AAAAA-TAAAAAT
1 AAAAATTAAAAAT
6396197 GTATATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 9 0.35
15 11 0.42
16 6 0.23
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (15 bp):
AAAAATTAAAAATAT
Found at i:6396179 original size:6 final size:7
Alignment explanation
Indices: 6396154--6396196 Score: 52
Period size: 7 Copynumber: 5.9 Consensus size: 7
6396144 AATATTTTTA
6396154 AAAATATT
1 AAAA-ATT
6396162 AAAAATT
1 AAAAATT
6396169 AAAAATT
1 AAAAATT
6396176 AAAAAGTAT
1 AAAAA-T-T
6396185 AAAAA-T
1 AAAAATT
6396191 AAAAAT
1 AAAAAT
6396197 GTATATTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
6 6 0.19
7 15 0.47
8 5 0.16
9 6 0.19
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (7 bp):
AAAAATT
Found at i:6396195 original size:16 final size:16
Alignment explanation
Indices: 6396168--6396201 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6396158 TATTAAAAAT
*
6396168 TAAAAATTAAAAAGTA
1 TAAAAATAAAAAAGTA
*
6396184 TAAAAATAAAAATGTA
1 TAAAAATAAAAAAGTA
6396200 TA
1 TA
6396202 TTTATAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (16 bp):
TAAAAATAAAAAAGTA
Found at i:6400633 original size:16 final size:16
Alignment explanation
Indices: 6400609--6400643 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
6400599 TAAATTATCG
*
6400609 ATTATAATTCTATTTC
1 ATTAAAATTCTATTTC
*
6400625 ATTAAAATTTTATTTC
1 ATTAAAATTCTATTTC
6400641 ATT
1 ATT
6400644 CTAATGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTAAAATTCTATTTC
Found at i:6402882 original size:14 final size:14
Alignment explanation
Indices: 6402863--6402891 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6402853 TGGTGAAATA
6402863 AGAAAAACTATTTT
1 AGAAAAACTATTTT
6402877 AGAAAAACTATTTT
1 AGAAAAACTATTTT
6402891 A
1 A
6402892 CCCTTAAGCT
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:0.07, G:0.07, T:0.34
Consensus pattern (14 bp):
AGAAAAACTATTTT
Found at i:6414601 original size:24 final size:27
Alignment explanation
Indices: 6414531--6414618 Score: 101
Period size: 27 Copynumber: 3.4 Consensus size: 27
6414521 AACAAACAAC
* *
6414531 AAAATTCAAAACAAAGGAAAACAGCAG
1 AAAATTCAAAATAAAGGATAACAGCAG
* *
6414558 CAAATTCAAAATAAATGATAACAG-A-
1 AAAATTCAAAATAAAGGATAACAGCAG
*
6414583 AAAATTC-AAATAAAGGATAACACCAG
1 AAAATTCAAAATAAAGGATAACAGCAG
*
6414609 AAAGTTCAAA
1 AAAATTCAAA
6414619 CACATGCTTA
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
24 14 0.28
25 7 0.14
26 7 0.14
27 22 0.44
ACGTcount: A:0.60, C:0.14, G:0.11, T:0.15
Consensus pattern (27 bp):
AAAATTCAAAATAAAGGATAACAGCAG
Found at i:6417750 original size:27 final size:28
Alignment explanation
Indices: 6417703--6417757 Score: 94
Period size: 27 Copynumber: 2.0 Consensus size: 28
6417693 AAACAAACAA
*
6417703 CAAAATTCAAAATAAATGATAACACCAG
1 CAAAATTCAAAATAAAGGATAACACCAG
6417731 CAAAATTC-AAATAAAGGATAACACCAG
1 CAAAATTCAAAATAAAGGATAACACCAG
6417758 AAAGTAAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 18 0.69
28 8 0.31
ACGTcount: A:0.56, C:0.18, G:0.09, T:0.16
Consensus pattern (28 bp):
CAAAATTCAAAATAAAGGATAACACCAG
Found at i:6418549 original size:27 final size:26
Alignment explanation
Indices: 6418511--6418566 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
6418501 ACAGTATTCA
* *
6418511 AAATAAATGATAACACCAGCAAATTTC
1 AAATAAAGGATAACACCAG-AAAGTTC
*
6418538 AAATAAAGGATAACCCCAGAAAGTTC
1 AAATAAAGGATAACACCAGAAAGTTC
6418564 AAA
1 AAA
6418567 CACATTCATC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 9 0.35
27 17 0.65
ACGTcount: A:0.54, C:0.18, G:0.11, T:0.18
Consensus pattern (26 bp):
AAATAAAGGATAACACCAGAAAGTTC
Found at i:6419141 original size:2 final size:2
Alignment explanation
Indices: 6419134--6419162 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6419124 GTATATTGGA
6419134 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
6419163 ATGAAGCAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6419315 original size:22 final size:22
Alignment explanation
Indices: 6419285--6419328 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
6419275 GAAATTATCT
*
6419285 AAAATCCTAAGCACATTGATTA
1 AAAACCCTAAGCACATTGATTA
6419307 AAAACCCTAAGCACATTGATTA
1 AAAACCCTAAGCACATTGATTA
6419329 CAAAGGATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.45, C:0.20, G:0.09, T:0.25
Consensus pattern (22 bp):
AAAACCCTAAGCACATTGATTA
Found at i:6423087 original size:21 final size:21
Alignment explanation
Indices: 6423057--6423114 Score: 55
Period size: 24 Copynumber: 2.6 Consensus size: 21
6423047 GTGATGCTGC
* *
6423057 TGATGATGATAGAAGTGGAGG
1 TGATGCTGATAGAAGTGAAGG
6423078 TGATGCTGATGATAGAAGTGAAGG
1 TGATGC---TGATAGAAGTGAAGG
6423102 TGATGGCTG-TAGA
1 TGAT-GCTGATAGA
6423115 CGCTATAGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
21 9 0.29
22 2 0.06
24 18 0.58
25 2 0.06
ACGTcount: A:0.31, C:0.03, G:0.40, T:0.26
Consensus pattern (21 bp):
TGATGCTGATAGAAGTGAAGG
Found at i:6423092 original size:24 final size:24
Alignment explanation
Indices: 6423060--6423106 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
6423050 ATGCTGCTGA
*
6423060 TGATGATAGAAGTGGAGGTGATGC
1 TGATGATAGAAGTGAAGGTGATGC
6423084 TGATGATAGAAGTGAAGGTGATG
1 TGATGATAGAAGTGAAGGTGATG
6423107 GCTGTAGACG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.32, C:0.02, G:0.40, T:0.26
Consensus pattern (24 bp):
TGATGATAGAAGTGAAGGTGATGC
Found at i:6423349 original size:22 final size:21
Alignment explanation
Indices: 6423321--6423368 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
6423311 TTGTGTTCTG
* *
6423321 TTTTAGAATTTTATTTTGTTTT
1 TTTTAGAAATTT-TTTAGTTTT
6423343 TTTTAGAAATTTTTTAGTTTT
1 TTTTAGAAATTTTTTAGTTTT
*
6423364 ATTTA
1 TTTTA
6423369 TACATGTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (21 bp):
TTTTAGAAATTTTTTAGTTTT
Found at i:6435830 original size:42 final size:43
Alignment explanation
Indices: 6435783--6435864 Score: 130
Period size: 42 Copynumber: 1.9 Consensus size: 43
6435773 AAGTTACTTG
*
6435783 ACTAGCAATTTGACTCAAA-TATTTGTTTAGAAGCACTCGAGA
1 ACTAGCAATTTGACTCAAACGATTTGTTTAGAAGCACTCGAGA
*
6435825 ACTAGCAATTTGATTCAAACCGATTTGTTTAGAAGCACTC
1 ACTAGCAATTTGACTCAAA-CGATTTGTTTAGAAGCACTC
6435865 AAGAGCTTCC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 18 0.50
44 18 0.50
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (43 bp):
ACTAGCAATTTGACTCAAACGATTTGTTTAGAAGCACTCGAGA
Found at i:6440366 original size:52 final size:52
Alignment explanation
Indices: 6440287--6440391 Score: 165
Period size: 52 Copynumber: 2.0 Consensus size: 52
6440277 TACTTACAGC
* * *
6440287 CCAACCAATTCCTTGCGGTGTCGCTCCTCAACCAGCCGAACAAGTGAACCCA
1 CCAACCAATTCCTTGCGGTGGCCCTCCTCAACCAACCGAACAAGTGAACCCA
* *
6440339 CCAATCAATTCCTTGCGGTGGCCCTCCTCAATCAACCGAACAAGTGAACCCA
1 CCAACCAATTCCTTGCGGTGGCCCTCCTCAACCAACCGAACAAGTGAACCCA
6440391 C
1 C
6440392 TCATTAGTCA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.28, C:0.38, G:0.16, T:0.18
Consensus pattern (52 bp):
CCAACCAATTCCTTGCGGTGGCCCTCCTCAACCAACCGAACAAGTGAACCCA
Found at i:6448620 original size:31 final size:32
Alignment explanation
Indices: 6448584--6448643 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
6448574 TAAAAGATAT
*
6448584 TAATACAAATCCTT-AAAAAAATAAGATTGAC
1 TAATACAAACCCTTGAAAAAAATAAGATTGAC
* *
6448615 TAATACAAACCCTTGAATAAATTAAGATT
1 TAATACAAACCCTTGAAAAAAATAAGATT
6448644 AATTAGAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 13 0.52
32 12 0.48
ACGTcount: A:0.52, C:0.13, G:0.07, T:0.28
Consensus pattern (32 bp):
TAATACAAACCCTTGAAAAAAATAAGATTGAC
Found at i:6450944 original size:23 final size:23
Alignment explanation
Indices: 6450869--6450982 Score: 106
Period size: 23 Copynumber: 5.0 Consensus size: 23
6450859 AAGTGCTGGG
* *
6450869 GAAACAGTAAGCACACACAGTGC
1 GAAACAGTAGGCACACAAAGTGC
* * * * *
6450892 -AATCAGCAGGCGCACATAGCGC
1 GAAACAGTAGGCACACAAAGTGC
*
6450914 -AAATCAGTAGGCACACGAAGTGC
1 GAAA-CAGTAGGCACACAAAGTGC
6450937 GAAACAGTAGGCACACAAAGTGC
1 GAAACAGTAGGCACACAAAGTGC
* * *
6450960 GAAACAATAAGCACACACAGTGC
1 GAAACAGTAGGCACACAAAGTGC
6450983 TGAACGGTAA
Statistics
Matches: 73, Mismatches: 16, Indels: 4
0.78 0.17 0.04
Matches are distributed among these distances:
22 18 0.25
23 52 0.71
24 3 0.04
ACGTcount: A:0.41, C:0.25, G:0.24, T:0.10
Consensus pattern (23 bp):
GAAACAGTAGGCACACAAAGTGC
Found at i:6450982 original size:46 final size:45
Alignment explanation
Indices: 6450869--6450982 Score: 124
Period size: 46 Copynumber: 2.5 Consensus size: 45
6450859 AAGTGCTGGG
* * *
6450869 GAAACAGTAAGCACACACAGTGCAATCAGCAGGCGCACATAGCGC
1 GAAACAGTAAGCACACACAGTGCAAACAGCAGGCACACAAAGCGC
* * *
6450914 -AAATCAGTAGGCACACGA-AGTGCGAAACAGTAGGCACACAAAGTGC
1 GAAA-CAGTAAGCACAC-ACAGTGC-AAACAGCAGGCACACAAAGCGC
*
6450960 GAAACAATAAGCACACACAGTGC
1 GAAACAGTAAGCACACACAGTGC
6450983 TGAACGGTAA
Statistics
Matches: 56, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
44 3 0.05
45 17 0.30
46 33 0.59
47 3 0.05
ACGTcount: A:0.41, C:0.25, G:0.24, T:0.10
Consensus pattern (45 bp):
GAAACAGTAAGCACACACAGTGCAAACAGCAGGCACACAAAGCGC
Found at i:6459899 original size:28 final size:29
Alignment explanation
Indices: 6459849--6459905 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
6459839 TCGACGGATA
* * *
6459849 AATAATAATTAAATAAATAATTTTAAAAT
1 AATAAAAATTAAATAAAAAATTTAAAAAT
6459878 AATAAAAATT-AATAAAAAATTTAAAAAT
1 AATAAAAATTAAATAAAAAATTTAAAAAT
6459906 TGGTTCAGTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 16 0.64
29 9 0.36
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (29 bp):
AATAAAAATTAAATAAAAAATTTAAAAAT
Found at i:6463740 original size:21 final size:22
Alignment explanation
Indices: 6463716--6463766 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
6463706 AAAAAACTAA
6463716 TTCTTAAACTTAA-GGGTCAAT
1 TTCTTAAACTTAACGGGTCAAT
*
6463737 TTCTT-AAGTTAACTGGGTCAAT
1 TTCTTAAACTTAAC-GGGTCAAT
*
6463759 TACTTAAA
1 TTCTTAAA
6463767 AGGCCAATGG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 6 0.24
21 5 0.20
22 12 0.48
23 2 0.08
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (22 bp):
TTCTTAAACTTAACGGGTCAAT
Found at i:6463873 original size:78 final size:78
Alignment explanation
Indices: 6463754--6464130 Score: 531
Period size: 78 Copynumber: 4.8 Consensus size: 78
6463744 GTTAACTGGG
* * * *
6463754 TCAATTACTTAAAAGGCCAATGGTTACGACATATTTCTTCTAATCTCGACACTCCCCCACAATTT
1 TCAATTACTT--AAGGTCAAAGGTTACAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTT
*
6463819 AACTAGATCTTAATA
64 AACTGGATCTTAATA
* *
6463834 TCAATTACTTAAGGTCAAAGGTTACAATATATTTCTTCTAATCTCGACACTCTCCCACAAGTTAA
1 TCAATTACTTAAGGTCAAAGGTTACAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTTAA
*
6463899 TTGGATCTTAATA
66 CTGGATCTTAATA
* *
6463912 TCAATTACTTAAGGTCAAATGTTACAATATATTTCTTCTAATCTCGACACTCCCCCACAAGTTAA
1 TCAATTACTTAAGGTCAAAGGTTACAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTTAA
6463977 CTGGATCTTAATA
66 CTGGATCTTAATA
* * * *
6463990 TCAATTACTTAAGGTCGAAGATTACAACATATTTCTTCTAATCTCGATA-TTCCCCACAAGTTAA
1 TCAATTACTTAAGGTCAAAGGTTACAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTTAA
*
6464054 CTGGATCCTAATA
66 CTGGATCTTAATA
* * * * * * *
6464067 TCAATTACTTAAGTTAAAAGATTATAACATATTTCTTTTAATCTTGACACTCCTCCACAAGTTA
1 TCAATTACTTAAGGTCAAAGGTTACAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTTA
6464131 GTACGTAGAT
Statistics
Matches: 269, Mismatches: 27, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
77 68 0.25
78 191 0.71
80 10 0.04
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.35
Consensus pattern (78 bp):
TCAATTACTTAAGGTCAAAGGTTACAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTTAA
CTGGATCTTAATA
Found at i:6466161 original size:28 final size:26
Alignment explanation
Indices: 6466116--6466173 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
6466106 GAACAACACC
*
6466116 AAATATATAATAAAATTTATTACTTATA
1 AAATAAATAATAAAA-TT-TTACTTATA
*
6466144 AAATAAATAA-AAATATTTTATTTATA
1 AAATAAATAATAAA-ATTTTACTTATA
6466170 AAAT
1 AAAT
6466174 TATTAATTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 12 0.44
27 5 0.19
28 10 0.37
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (26 bp):
AAATAAATAATAAAATTTTACTTATA
Found at i:6466686 original size:26 final size:25
Alignment explanation
Indices: 6466629--6466686 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
6466619 ATACTGAATA
** * *
6466629 AAAAATTAAAGATGTTTTTTTTTTG
1 AAAAATTAAAGATGTTTCATGTTAG
6466654 AATAAATTAAAGATGTTTCATGTTAG
1 AA-AAATTAAAGATGTTTCATGTTAG
6466680 ACAAAAT
1 A-AAAAT
6466687 CGCATATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 2 0.07
26 24 0.89
27 1 0.04
ACGTcount: A:0.43, C:0.03, G:0.12, T:0.41
Consensus pattern (25 bp):
AAAAATTAAAGATGTTTCATGTTAG
Found at i:6485423 original size:59 final size:59
Alignment explanation
Indices: 6485358--6485494 Score: 143
Period size: 59 Copynumber: 2.3 Consensus size: 59
6485348 ACCCGGGGGC
*
6485358 AAAATGGTAATATTGG-ACGCGCGA-GGGAAAAATGGTAATTTTTGGTAAAATTGGGGTTA
1 AAAATGG-AATATTGGAAAG-GCGAGGGGAAAAATGGTAATTTTTGGTAAAATTGGGGTTA
* *** * * * *
6485417 AAAATGGAATTTTGGAAAGTTTAGGGGTAACATGGTAATTTTTGGTGAAGTTGGGGTTA
1 AAAATGGAATATTGGAAAGGCGAGGGGAAAAATGGTAATTTTTGGTAAAATTGGGGTTA
* *
6485476 AAAATGGAATTTTGAAAAG
1 AAAATGGAATATTGGAAAG
6485495 TTTAGGGGTA
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
58 8 0.12
59 58 0.88
ACGTcount: A:0.36, C:0.03, G:0.30, T:0.31
Consensus pattern (59 bp):
AAAATGGAATATTGGAAAGGCGAGGGGAAAAATGGTAATTTTTGGTAAAATTGGGGTTA
Found at i:6485489 original size:29 final size:31
Alignment explanation
Indices: 6485385--6485488 Score: 121
Period size: 30 Copynumber: 3.5 Consensus size: 31
6485375 CGCGCGAGGG
*
6485385 AAAAATGGTAATTTTTGGTAAAATTGGGGTT
1 AAAAATGGTAATTTTTGGTAAAGTTGGGGTT
6485416 AAAAATGG-AA-TTTTGG-AAAGTTTAGGGG-T
1 AAAAATGGTAATTTTTGGTAAAG-TT-GGGGTT
* *
6485445 -AACATGGTAATTTTTGGTGAAGTTGGGGTT
1 AAAAATGGTAATTTTTGGTAAAGTTGGGGTT
6485475 AAAAATGG-AATTTT
1 AAAAATGGTAATTTT
6485489 GAAAAGTTTA
Statistics
Matches: 62, Mismatches: 4, Indels: 15
0.77 0.05 0.19
Matches are distributed among these distances:
28 9 0.15
29 15 0.24
30 21 0.34
31 17 0.27
ACGTcount: A:0.35, C:0.01, G:0.28, T:0.37
Consensus pattern (31 bp):
AAAAATGGTAATTTTTGGTAAAGTTGGGGTT
Found at i:6485495 original size:59 final size:59
Alignment explanation
Indices: 6485389--6485511 Score: 210
Period size: 59 Copynumber: 2.1 Consensus size: 59
6485379 CGAGGGAAAA
*
6485389 ATGGTAATTTTTGGTAAAATTGGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAC
1 ATGGTAATTTTTGGTAAAATTGGGGTTAAAAATGGAATTTTGAAAAGTTTAGGGGTAAC
* * *
6485448 ATGGTAATTTTTGGTGAAGTTGGGGTTAAAAATGGAATTTTGAAAAGTTTAGGGGTAAT
1 ATGGTAATTTTTGGTAAAATTGGGGTTAAAAATGGAATTTTGAAAAGTTTAGGGGTAAC
6485507 ATGGT
1 ATGGT
6485512 TGTCGAAACC
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.33, C:0.01, G:0.30, T:0.37
Consensus pattern (59 bp):
ATGGTAATTTTTGGTAAAATTGGGGTTAAAAATGGAATTTTGAAAAGTTTAGGGGTAAC
Found at i:6485503 original size:30 final size:30
Alignment explanation
Indices: 6485410--6485503 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
6485400 TGGTAAAATT
*
6485410 GGGGTTAAAAATGGAATTTTGGAAAGTTTA
1 GGGGTTAAAAATGGAATTTTGAAAAGTTTA
* **
6485440 GGGG-T-AACATGGTAATTTTTGGTGAAG-TT-
1 GGGGTTAAAAATGG-AA-TTTT-GAAAAGTTTA
6485469 GGGGTTAAAAATGGAATTTTGAAAAGTTTA
1 GGGGTTAAAAATGGAATTTTGAAAAGTTTA
6485499 GGGGT
1 GGGGT
6485504 AATATGGTTG
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
28 10 0.20
29 13 0.25
30 18 0.35
31 10 0.20
ACGTcount: A:0.32, C:0.01, G:0.33, T:0.34
Consensus pattern (30 bp):
GGGGTTAAAAATGGAATTTTGAAAAGTTTA
Found at i:6486739 original size:58 final size:59
Alignment explanation
Indices: 6486677--6487097 Score: 575
Period size: 58 Copynumber: 7.2 Consensus size: 59
6486667 AGGGCAGTAC
* * * *
6486677 GGTAATTTT-TGTGAAATTAGGGTTTAAAATAGAATTTTGGAAAGTTCGGGGGTAAAAT
1 GGTAATTTTCGGTGAAATTAGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAAT
** * *
6486735 GGTAATCTTT-GGTGAAATCGGGGTTAAAAATGG-AGTTTGGGAAGTTTGGGGGTAAAAT
1 GGTAAT-TTTCGGTGAAATTAGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAAT
* *
6486793 GGTAATTTTCGGTGAAATTGGGGTTAAAAATGGAATTTTGGAAAGTTT-GGGGTAAAAC
1 GGTAATTTTCGGTGAAATTAGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAAT
6486851 GGTAATTTTCGGTGAAATTAGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAAT
1 GGTAATTTTCGGTGAAATTAGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAAT
* * * * * *
6486910 GGTAATTTTTGATGAAA-TCGAGGATAAAAATGGAAATTTGGAAAGTTTAGGGGTAAAAT
1 GGTAATTTTCGGTGAAATTAG-GGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAAT
* *
6486969 GGTAATTTTCGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTTGGCGGTAAAAT
1 GGTAATTTTCGGTGAAATTAGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAAT
* * **
6487028 GGTAATTTTCGGTGAAA-TCGAGTTAAAAATGGAATTTTGGAGGGTTTGGGGGTAAAAT
1 GGTAATTTTCGGTGAAATTAGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAAT
*
6487086 GGTAATCTTCGG
1 GGTAATTTTCGG
6487098 AAGTTTTAGG
Statistics
Matches: 322, Mismatches: 35, Indels: 12
0.87 0.09 0.03
Matches are distributed among these distances:
57 3 0.01
58 160 0.50
59 158 0.49
60 1 0.00
ACGTcount: A:0.33, C:0.03, G:0.31, T:0.33
Consensus pattern (59 bp):
GGTAATTTTCGGTGAAATTAGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAAT
Found at i:6486759 original size:59 final size:59
Alignment explanation
Indices: 6486677--6487097 Score: 584
Period size: 59 Copynumber: 7.2 Consensus size: 59
6486667 AGGGCAGTAC
* * * * *
6486677 GGTAATTTT-TGTGAAATTAGGGTTTAAAATAGAATTTTGGAAAGTTCGGGGGTAAAAT
1 GGTAATTTTCGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAAT
* * *
6486735 GGTAATCTTT-GGTGAAATCGGGGTTAAAAATGG-AGTTTGGGAAGTTTGGGGGTAAAAT
1 GGTAAT-TTTCGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAAT
** *
6486793 GGTAATTTTCGGTGAAATTGGGGTTAAAAATGGAATTTTGGAAAGTTT-GGGGTAAAAC
1 GGTAATTTTCGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAAT
*
6486851 GGTAATTTTCGGTGAAATTAGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAAT
1 GGTAATTTTCGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAAT
* * * * *
6486910 GGTAATTTTTGATGAAATC-GAGGATAAAAATGGAAATTTGGAAAGTTTAGGGGTAAAAT
1 GGTAATTTTCGGTGAAATCAG-GGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAAT
*
6486969 GGTAATTTTCGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTTGGCGGTAAAAT
1 GGTAATTTTCGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAAT
* **
6487028 GGTAATTTTCGGTGAAATC-GAGTTAAAAATGGAATTTTGGAGGGTTTGGGGGTAAAAT
1 GGTAATTTTCGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAAT
*
6487086 GGTAATCTTCGG
1 GGTAATTTTCGG
6487098 AAGTTTTAGG
Statistics
Matches: 326, Mismatches: 31, Indels: 12
0.88 0.08 0.03
Matches are distributed among these distances:
57 3 0.01
58 159 0.49
59 163 0.50
60 1 0.00
ACGTcount: A:0.33, C:0.03, G:0.31, T:0.33
Consensus pattern (59 bp):
GGTAATTTTCGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAAT
Found at i:6486786 original size:29 final size:30
Alignment explanation
Indices: 6486696--6487103 Score: 138
Period size: 29 Copynumber: 13.9 Consensus size: 30
6486686 TGTGAAATTA
* * * *
6486696 GGGTTTAAAATAGAATTTTGGAAAGTTCGG
1 GGGTTAAAAATGGAATTTTGGGAAGTTTGG
* *
6486726 GGG-T-AAAATGGTAATCTTTGGTGAA--ATCG
1 GGGTTAAAAATGG-AAT-TTTGG-GAAGTTTGG
*
6486755 GGGTTAAAAATGG-AGTTTGGGAAGTTTGG
1 GGGTTAAAAATGGAATTTTGGGAAGTTTGG
*
6486784 GGG-T-AAAATGGTAATTTTCGGTGAA-ATT-G
1 GGGTTAAAAATGG-AATTTT-GG-GAAGTTTGG
*
6486813 GGGTTAAAAATGGAATTTTGGAAAGTTT-G
1 GGGTTAAAAATGGAATTTTGGGAAGTTTGG
* * *
6486842 GGG-T-AAAACGGTAATTTTCGGTGAA-ATT-A
1 GGGTTAAAAATGG-AATTTT-GG-GAAGTTTGG
*
6486871 GGGTTAAAAATGGAATTTTGGAAAGTTTGG
1 GGGTTAAAAATGGAATTTTGGGAAGTTTGG
* * *
6486901 GGG-T-AAAATGGTAATTTTTGATGAA--ATCG
1 GGGTTAAAAATGG-AA-TTTTG-GGAAGTTTGG
* * * * *
6486930 AGGATAAAAATGGAAATTTGGAAAGTTTAG
1 GGGTTAAAAATGGAATTTTGGGAAGTTTGG
* **
6486960 GGG-T-AAAATGGTAATTTTCGGTGAA--ATCA
1 GGGTTAAAAATGG-AATTTT-GG-GAAGTTTGG
*
6486989 GGGTTAAAAATGGAATTTTGGAAAGTTTGG
1 GGGTTAAAAATGGAATTTTGGGAAGTTTGG
* * *
6487019 CGG-T-AAAATGGTAATTTTCGGTGAA--AT-C
1 GGGTTAAAAATGG-AATTTT-GG-GAAGTTTGG
* *
6487047 GAGTTAAAAATGGAATTTT-GGAGGGTTTGG
1 GGGTTAAAAATGGAATTTTGGGA-AGTTTGG
* *
6487077 GGG-T-AAAATGGTAATCTTCGGAAGTTT
1 GGGTTAAAAATGG-AATTTTGGGAAGTTT
6487104 TAGGGTCAGA
Statistics
Matches: 280, Mismatches: 52, Indels: 93
0.66 0.12 0.22
Matches are distributed among these distances:
26 2 0.01
27 17 0.06
28 56 0.20
29 90 0.32
30 70 0.25
31 45 0.16
ACGTcount: A:0.33, C:0.03, G:0.31, T:0.32
Consensus pattern (30 bp):
GGGTTAAAAATGGAATTTTGGGAAGTTTGG
Found at i:6486836 original size:117 final size:118
Alignment explanation
Indices: 6486677--6487097 Score: 591
Period size: 117 Copynumber: 3.6 Consensus size: 118
6486667 AGGGCAGTAC
* * * * *
6486677 GGTAATTTT-TGTGAAATTAGGGTTTAAAATAGAATTTTGGAAAGTTCGGGGGTAAAATGGTAAT
1 GGTAATTTTCGGTGAAATTGGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAAT
* * *
6486741 CTTT-GGTGAAATCGGGGTTAAAAATGG-AGTTTGGGAAGTTTGGGGGTAAAAT
66 -TTTCGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAAT
*
6486793 GGTAATTTTCGGTGAAATTGGGGTTAAAAATGGAATTTTGGAAAGTTT-GGGGTAAAACGGTAAT
1 GGTAATTTTCGGTGAAATTGGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAAT
*
6486857 TTTCGGTGAAATTAGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAAT
66 TTTCGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAAT
* * * * * * *
6486910 GGTAATTTTTGATGAAATCGAGGATAAAAATGGAAATTTGGAAAGTTTAGGGGTAAAATGGTAAT
1 GGTAATTTTCGGTGAAATTGGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAAT
*
6486975 TTTCGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTTGGCGGTAAAAT
66 TTTCGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAAT
* * **
6487028 GGTAATTTTCGGTGAAA-TCGAGTTAAAAATGGAATTTTGGAGGGTTTGGGGGTAAAATGGTAAT
1 GGTAATTTTCGGTGAAATTGGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAAT
*
6487092 CTTCGG
66 TTTCGG
6487098 AAGTTTTAGG
Statistics
Matches: 270, Mismatches: 31, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
115 3 0.01
116 45 0.17
117 141 0.52
118 81 0.30
ACGTcount: A:0.33, C:0.03, G:0.31, T:0.33
Consensus pattern (118 bp):
GGTAATTTTCGGTGAAATTGGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAAT
TTTCGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAAT
Found at i:6488971 original size:11 final size:11
Alignment explanation
Indices: 6488955--6489046 Score: 80
Period size: 11 Copynumber: 8.1 Consensus size: 11
6488945 TACAAATAAT
6488955 ATTAAATTTAA
1 ATTAAATTTAA
*
6488966 ATTAAATTCAA
1 ATTAAATTTAA
6488977 ACTTAAA-TTAA
1 A-TTAAATTTAA
6488988 ATTTAAATTTAA
1 A-TTAAATTTAA
*
6489000 ATTAAATTAAA
1 ATTAAATTTAA
*
6489011 ATTTAAA-ATAA
1 A-TTAAATTTAA
*
6489022 ATTTAATTTCAA
1 ATTAAATTT-AA
*
6489034 AGTAAATTCTAA
1 ATTAAATT-TAA
6489046 A
1 A
6489047 ATGGTTTGGG
Statistics
Matches: 65, Mismatches: 10, Indels: 11
0.76 0.12 0.13
Matches are distributed among these distances:
10 4 0.06
11 34 0.52
12 26 0.40
13 1 0.02
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.40
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:6488984 original size:17 final size:17
Alignment explanation
Indices: 6488940--6489024 Score: 100
Period size: 17 Copynumber: 4.9 Consensus size: 17
6488930 TGGACATTTT
*
6488940 AAATTTACAAATAATATT-
1 AAATTTA-AATTAA-ATTA
*
6488958 AAATTTAAATTAAATTC
1 AAATTTAAATTAAATTA
* *
6488975 AAACTTAAATTAAATTT
1 AAATTTAAATTAAATTA
6488992 AAATTTAAATTAAATTA
1 AAATTTAAATTAAATTA
*
6489009 AAATTTAAAATAAATT
1 AAATTTAAATTAAATT
6489025 TAATTTCAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
16 3 0.05
17 50 0.83
18 7 0.12
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (17 bp):
AAATTTAAATTAAATTA
Found at i:6488994 original size:34 final size:34
Alignment explanation
Indices: 6488948--6489042 Score: 122
Period size: 34 Copynumber: 2.8 Consensus size: 34
6488938 TTAAATTTAC
6488948 AAAT-AATATTAAATTTAAATTAAATTCAAACTTA
1 AAATAAAT-TTAAATTTAAATTAAATTCAAACTTA
* * *
6488982 AATTAAATTTAAATTTAAATTAAATTAAAATTTA
1 AAATAAATTTAAATTTAAATTAAATTCAAACTTA
*
6489016 AAATAAATTT-AATTTCAAAGTAAATTC
1 AAATAAATTTAAATTT-AAATTAAATTC
6489043 TAAAATGGTT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
33 5 0.09
34 45 0.85
35 3 0.06
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (34 bp):
AAATAAATTTAAATTTAAATTAAATTCAAACTTA
Found at i:6489039 original size:17 final size:16
Alignment explanation
Indices: 6488941--6489041 Score: 76
Period size: 17 Copynumber: 5.9 Consensus size: 16
6488931 GGACATTTTA
*
6488941 AATTTACAAATAATATTA
1 AATTTA-AAATAA-ATTT
* *
6488959 AATTTAAATTAAATTCA
1 AATTTAAAATAAATT-T
* *
6488976 AACTTAAATTAAATTT
1 AATTTAAAATAAATTT
* *
6488992 AAATTTAAATTAAATTAA
1 -AATTTAAAATAAATT-T
6489010 AATTTAAAATAAATTT
1 AATTTAAAATAAATTT
*
6489026 AATTTCAAAGTAAATT
1 AATTT-AAAATAAATT
6489042 CTAAAATGGT
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
16 8 0.11
17 57 0.80
18 6 0.08
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (16 bp):
AATTTAAAATAAATTT
Found at i:6489040 original size:28 final size:29
Alignment explanation
Indices: 6488991--6489048 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 29
6488981 AAATTAAATT
*
6488991 TAAATTTAAATTAAATTAAAATT-TAAAA
1 TAAATTTAAATTAAAGTAAAATTCTAAAA
*
6489019 TAAATTTAATTTCAAAGT-AAATTCTAAAA
1 TAAATTTAAATT-AAAGTAAAATTCTAAAA
6489048 T
1 T
6489049 GGTTTGGGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 16 0.62
29 10 0.38
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (29 bp):
TAAATTTAAATTAAAGTAAAATTCTAAAA
Found at i:6489149 original size:59 final size:59
Alignment explanation
Indices: 6489080--6489329 Score: 369
Period size: 59 Copynumber: 4.2 Consensus size: 59
6489070 GGGCTCCAAC
*
6489080 AATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGGAATTTTGGAAAGTTC-GAGGGTAA
1 AATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCAG-GGGTAA
* * * *
6489139 AATGGTAATTTTTGATGAAA-CTGAGGTTAAAAATGGAGTTTTGGAAAGTTTAGGGGTAA
1 AATGGTAATTTTTGGTGAAATC-GGGGTTAAAAATGGAATTTTGGAAAGTTCAGGGGTAA
6489198 AATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCAGGGGTAA
1 AATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCAGGGGTAA
* * * * * *
6489257 AACGGTAATTTTTGGTGAAATCGGGGTTAAAAATAGAGTTTTAGAAAGTTTAAGGGTAA
1 AATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCAGGGGTAA
6489316 AATGGTAATTTTTG
1 AATGGTAATTTTTG
6489330 AACAGTTCAG
Statistics
Matches: 172, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
59 170 0.99
60 2 0.01
ACGTcount: A:0.35, C:0.02, G:0.29, T:0.34
Consensus pattern (59 bp):
AATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCAGGGGTAA
Found at i:6489170 original size:30 final size:29
Alignment explanation
Indices: 6489080--6489288 Score: 121
Period size: 30 Copynumber: 7.1 Consensus size: 29
6489070 GGGCTCCAAC
*
6489080 AATGGTAATTTTTGGTGAAATTGGGGTTAAA
1 AATGGTAATTTTT-GTGAAATTGAGGTT-AA
*
6489111 AATGG-AA-TTTTG-GAAAGTTCGAGGGTAA
1 AATGGTAATTTTTGTGAAA-TT-GAGGTTAA
*
6489139 AATGGTAATTTTTGATGAAACTGAGGTTAAA
1 AATGGTAATTTTTG-TGAAATTGAGGTT-AA
* * *
6489170 AATGG--AGTTTTG-GAAAGTTTAGGGGTAA
1 AATGGTAATTTTTGTGAAA-TTGA-GGTTAA
* *
6489198 AATGGTAATTTTTGGTGAAATCGGGGTTAAA
1 AATGGTAATTTTT-GTGAAATTGAGGTT-AA
* *
6489229 AATGG-AA-TTTTG-GAAAGTTCAGGGGTAA
1 AATGGTAATTTTTGTGAAA-TTGA-GGTTAA
* * *
6489257 AACGGTAATTTTTGGTGAAATCGGGGTTAA
1 AATGGTAATTTTT-GTGAAATTGAGGTTAA
6489287 AA
1 AA
6489289 ATAGAGTTTT
Statistics
Matches: 136, Mismatches: 22, Indels: 41
0.68 0.11 0.21
Matches are distributed among these distances:
27 12 0.09
28 27 0.20
29 28 0.21
30 33 0.24
31 24 0.18
32 12 0.09
ACGTcount: A:0.34, C:0.03, G:0.30, T:0.33
Consensus pattern (29 bp):
AATGGTAATTTTTGTGAAATTGAGGTTAA
Found at i:6489266 original size:29 final size:29
Alignment explanation
Indices: 6489109--6489341 Score: 123
Period size: 29 Copynumber: 7.9 Consensus size: 29
6489099 ATTGGGGTTA
6489109 AAAATGG-AATTTTGGAAAGTTC-GAGGGT
1 AAAATGGTAATTTTGGAAAGTTCAG-GGGT
* * *
6489137 AAAATGGTAATTTTTGATGAAA-CTGA-GGTT
1 AAAATGGTAA-TTTTG--GAAAGTTCAGGGGT
* *
6489167 AAAAATGG-AGTTTTGGAAAGTTTAGGGGT
1 -AAAATGGTAATTTTGGAAAGTTCAGGGGT
6489196 AAAATGGTAATTTTTGGTGAAA--TC-GGGGTT
1 AAAATGGTAA-TTTT-G-GAAAGTTCAGGGG-T
6489226 AAAAATGG-AATTTTGGAAAGTTCAGGGGT
1 -AAAATGGTAATTTTGGAAAGTTCAGGGGT
*
6489255 AAAACGGTAATTTTTGGTGAAA--TC-GGGGTT
1 AAAATGGTAA-TTTT-G-GAAAGTTCAGGGG-T
* * * * *
6489285 AAAAATAG-AGTTTTAGAAAGTTTAAGGGT
1 -AAAATGGTAATTTTGGAAAGTTCAGGGGT
*
6489314 AAAATGGTAATTTTTGAACAGTTCAGGG
1 AAAATGGTAATTTTGGAA-AGTTCAGGG
6489342 ACCTATAAAA
Statistics
Matches: 156, Mismatches: 21, Indels: 54
0.68 0.09 0.23
Matches are distributed among these distances:
27 12 0.08
28 29 0.19
29 42 0.27
30 39 0.25
31 22 0.14
32 12 0.08
ACGTcount: A:0.36, C:0.03, G:0.29, T:0.32
Consensus pattern (29 bp):
AAAATGGTAATTTTGGAAAGTTCAGGGGT
Found at i:6491242 original size:6 final size:6
Alignment explanation
Indices: 6491195--6491316 Score: 85
Period size: 6 Copynumber: 21.0 Consensus size: 6
6491185 TTTTGGGCTT
* * * *
6491195 TTTAAT TTTAAT TTTAAA ATT--A TTTCAAA TTTAAA -CTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA
* ** *
6491241 TTTAAA -ATAAA TTTAAA TTTAAA AATGAA TTTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
6491288 -GTAAA TTTAAT TTTAGAA -ATAAA TTTAAA
1 TTTAAA TTTAAA TTTA-AA TTTAAA TTTAAA
6491317 AATCATTTTA
Statistics
Matches: 89, Mismatches: 19, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
4 3 0.03
5 14 0.16
6 67 0.75
7 5 0.06
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (6 bp):
TTTAAA
Found at i:6491276 original size:41 final size:41
Alignment explanation
Indices: 6491231--6491316 Score: 136
Period size: 41 Copynumber: 2.1 Consensus size: 41
6491221 AAATTTAAAC
*
6491231 TAAATTTAAATTTAAAATAAATTTAAATTTAAAAATGAATT
1 TAAATTTAAATTTAAAATAAATTTAAATTTAAAAATAAATT
* * *
6491272 TAAATTTAAATTTAAAGTAAATTTAATTTTAGAAATAAATT
1 TAAATTTAAATTTAAAATAAATTTAAATTTAAAAATAAATT
6491313 TAAA
1 TAAA
6491317 AATCATTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (41 bp):
TAAATTTAAATTTAAAATAAATTTAAATTTAAAAATAAATT
Found at i:6491297 original size:17 final size:17
Alignment explanation
Indices: 6491201--6491281 Score: 101
Period size: 17 Copynumber: 4.7 Consensus size: 17
6491191 GCTTTTTAAT
* *
6491201 TTTAATTTTAAAAT-TA
1 TTTAAATTTAAAATAAA
*
6491217 TTTCAAATTTAAACTAAA
1 TTT-AAATTTAAAATAAA
6491235 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
*
6491252 TTTAAATTTAAAAATGAA
1 TTTAAATTT-AAAATAAA
6491270 TTTAAATTTAAA
1 TTTAAATTTAAA
6491282 TTTAAAGTAA
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.05
17 34 0.60
18 20 0.35
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.44
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:6491302 original size:17 final size:18
Alignment explanation
Indices: 6491272--6491316 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
6491262 AAAATGAATT
*
6491272 TAAATTTAAATTTA-AAG
1 TAAATTTAAATTTAGAAA
*
6491289 TAAATTTAATTTTAGAAA
1 TAAATTTAAATTTAGAAA
6491307 TAAATTTAAA
1 TAAATTTAAA
6491317 AATCATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (18 bp):
TAAATTTAAATTTAGAAA
Found at i:6491327 original size:41 final size:41
Alignment explanation
Indices: 6491237--6491342 Score: 113
Period size: 41 Copynumber: 2.6 Consensus size: 41
6491227 AAACTAAATT
* **
6491237 TAAATTTAAAATAAATTTAAATTTAAAAATGAATTTAAATT
1 TAAATTTAAAATAAATTTAAATTTAAAAATAAATTTAAAAA
* * *
6491278 TAAATTTAAAGTAAATTTAATTTTAGAAATAAATTTAAAAA
1 TAAATTTAAAATAAATTTAAATTTAAAAATAAATTTAAAAA
* * * *
6491319 TCATTTTAAACTTAAATTAAAATT
1 TAAATTTAAA-ATAAATTTAAATT
6491343 GACCCAAAAT
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
41 43 0.81
42 10 0.19
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.42
Consensus pattern (41 bp):
TAAATTTAAAATAAATTTAAATTTAAAAATAAATTTAAAAA
Found at i:6491334 original size:24 final size:24
Alignment explanation
Indices: 6491248--6491340 Score: 75
Period size: 24 Copynumber: 3.7 Consensus size: 24
6491238 AAATTTAAAA
6491248 TAAATTTAAATTTAAAAATGAA-TT
1 TAAATTTAAATTTAAAAAT-AATTT
6491272 TAAATTTAAATTTAAAGTAAATTTAATTT
1 TAAATTTAAATTT-AA--AAA--TAATTT
* *
6491301 TAGAA-ATAAATTTAAAAATCATTT
1 TA-AATTTAAATTTAAAAATAATTT
*
6491325 TAAACTTAAA-TTAAAA
1 TAAATTTAAATTTAAAA
6491341 TTGACCCAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 17
0.74 0.04 0.22
Matches are distributed among these distances:
23 8 0.14
24 24 0.41
25 2 0.03
26 3 0.05
27 3 0.05
28 4 0.07
29 12 0.21
30 2 0.03
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (24 bp):
TAAATTTAAATTTAAAAATAATTT
Found at i:6491729 original size:76 final size:76
Alignment explanation
Indices: 6491599--6492134 Score: 937
Period size: 76 Copynumber: 7.0 Consensus size: 76
6491589 TCGAGGCTTC
* * *
6491599 ATCTTGCTCTTACTTCAATTTTAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTCAAG
1 ATCTTGCTCTTACTTCAA-TTT-CAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAG
*
6491664 AGGATAGAAAATG
64 AGGATAGGAAATG
6491677 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
6491742 GATAGGAAATG
66 GATAGGAAATG
6491753 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
6491818 GATAGGAAATG
66 GATAGGAAATG
* *
6491829 ATCTTGCTCTTACTTCAATTTTAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAAAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
6491894 GATAGGAAATG
66 GATAGGAAATG
* ** * *
6491905 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGTTTTACTTCAATTTCAAAAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
6491970 GATAGGAAATG
66 GATAGGAAATG
*
6491981 ATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
6492046 GATAGGAAATG
66 GATAGGAAATG
*
6492057 ATCTTGCTCTTACTTCAATTTCAGAGGTAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
6492122 GATAGGAAATG
66 GATAGGAAATG
6492133 AT
1 AT
6492135 GTTGGTGCTT
Statistics
Matches: 439, Mismatches: 19, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
76 418 0.95
77 3 0.01
78 18 0.04
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (76 bp):
ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
GATAGGAAATG
Found at i:6492248 original size:94 final size:92
Alignment explanation
Indices: 6492063--6492326 Score: 408
Period size: 94 Copynumber: 2.9 Consensus size: 92
6492053 AATGATCTTG
* * * *
6492063 CTCTTACTTCAATTTCAGA-GG-TAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATA
1 CTCTTACTTCAATTTCAGAGGGACAAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATA
6492126 GG-AAATGATGTTGGTGCTTCATTTTA
66 GGAAAATGATGTTGGTGCTTCATTTTA
** *
6492152 CTCTTACTTCAATTTTTGAGGGACAAAGGCTTGTTATCCAGCTTTACTTCACTTTCAAGAGAGGA
1 CTCTTACTTCAATTTCAGAGGGACAAAGGCTTGTTATCCAGCTTTACTTCAATTTC-A-AGAGGA
6492217 TAGGAAAATGATGTTGGTGCTTCATTTTA
64 TAGGAAAATGATGTTGGTGCTTCATTTTA
* *
6492246 CTCTTACTTCAATTTCCGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATA
1 CTCTTACTTCAATTTCAGAGGGACAAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATA
6492311 GGAAAATGATGTTGGT
66 GGAAAATGATGTTGGT
6492327 TTGATCTGAT
Statistics
Matches: 159, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
89 17 0.11
90 2 0.01
91 28 0.18
92 25 0.16
93 11 0.07
94 76 0.48
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (92 bp):
CTCTTACTTCAATTTCAGAGGGACAAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATA
GGAAAATGATGTTGGTGCTTCATTTTA
Found at i:6494767 original size:25 final size:26
Alignment explanation
Indices: 6494711--6494762 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
6494701 CATAAATATT
*
6494711 AAAATATATTGGTTTTTATTTGATAAA
1 AAAATATATTGGTTTTTACTTGA-AAA
*
6494738 AAAATATATTGTTTTTTACTTGAAA
1 AAAATATATTGGTTTTTACTTGAAA
6494763 TAAATTGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.48
Consensus pattern (26 bp):
AAAATATATTGGTTTTTACTTGAAAA
Found at i:6495891 original size:26 final size:25
Alignment explanation
Indices: 6495862--6495942 Score: 84
Period size: 26 Copynumber: 3.4 Consensus size: 25
6495852 TTGGTTTATG
6495862 TTTAAAAGATGTGTTTTTGGGTAAAT
1 TTTAAAAGATGTGTTTTT-GGTAAAT
6495888 TTTAAAAGATG-G-TTTT--T--AT
1 TTTAAAAGATGTGTTTTTGGTAAAT
*
6495907 TTATTAAAGATGTGTTTTTTGGTAAAT
1 TT-TAAAAGATGTG-TTTTTGGTAAAT
6495934 TTTAAAAGA
1 TTTAAAAGA
6495943 AGATTTTATT
Statistics
Matches: 45, Mismatches: 2, Indels: 16
0.71 0.03 0.25
Matches are distributed among these distances:
19 4 0.09
20 8 0.18
21 2 0.04
23 4 0.09
24 4 0.09
25 2 0.04
26 17 0.38
27 4 0.09
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (25 bp):
TTTAAAAGATGTGTTTTTGGTAAAT
Found at i:6497924 original size:46 final size:46
Alignment explanation
Indices: 6497857--6497947 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 46
6497847 TAGTTTTTCT
*
6497857 GGTGAAGGATGCAACTGTTCTTAAATGCTAGCAAGAAGAGTAAGGG
1 GGTGAAGGATACAACTGTTCTTAAATGCTAGCAAGAAGAGTAAGGG
*
6497903 GGTGAAGGATACATCTGTTCTTAAATGCTAGCAAGAAGAGTAAGG
1 GGTGAAGGATACAACTGTTCTTAAATGCTAGCAAGAAGAGTAAGG
6497948 ATACATCTGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.35, C:0.11, G:0.31, T:0.23
Consensus pattern (46 bp):
GGTGAAGGATACAACTGTTCTTAAATGCTAGCAAGAAGAGTAAGGG
Found at i:6498610 original size:46 final size:47
Alignment explanation
Indices: 6498553--6498642 Score: 146
Period size: 47 Copynumber: 1.9 Consensus size: 47
6498543 TTTATGTTTA
* * *
6498553 AAAGATGTG-TTTTTGGGTAAATTTTAAAAGATGGTTTTTATTTATC
1 AAAGATATGTTTTTTGGGTAAATTTTAAAAGAAGATTTTTATTTATC
6498599 AAAGATATGTTTTTTGGGTAAATTTTAAAAGAAGATTTTTATTT
1 AAAGATATGTTTTTTGGGTAAATTTTAAAAGAAGATTTTTATTT
6498643 TTCTTTCCTA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
46 8 0.20
47 32 0.80
ACGTcount: A:0.33, C:0.01, G:0.18, T:0.48
Consensus pattern (47 bp):
AAAGATATGTTTTTTGGGTAAATTTTAAAAGAAGATTTTTATTTATC
Found at i:6499741 original size:39 final size:39
Alignment explanation
Indices: 6499661--6499741 Score: 80
Period size: 36 Copynumber: 2.2 Consensus size: 39
6499651 AGACATAATG
* ** *
6499661 GGGTGGTGGTGGTGGAGACTTGTACTTGTA----AACTG
1 GGGTGGTGGAGGTGGAGACTTGTACTTGTAGGGGTGCTT
*
6499696 GAGGTGGTGGAGGTGGTGACTTGTACTTGTAGGGGTGCTT
1 G-GGTGGTGGAGGTGGAGACTTGTACTTGTAGGGGTGCTT
6499736 GGGTGG
1 GGGTGG
6499742 GGATGGAGGT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
35 1 0.03
36 27 0.75
39 5 0.14
40 3 0.08
ACGTcount: A:0.14, C:0.07, G:0.48, T:0.31
Consensus pattern (39 bp):
GGGTGGTGGAGGTGGAGACTTGTACTTGTAGGGGTGCTT
Found at i:6499770 original size:51 final size:51
Alignment explanation
Indices: 6499694--6499792 Score: 153
Period size: 51 Copynumber: 1.9 Consensus size: 51
6499684 ACTTGTAAAC
* * * *
6499694 TGGAGGTGGTGGAGGTGGTGACTTGTACTTGTAGGGGTGCTTGGGTGGGGA
1 TGGAGGTGGTGGAGGAGGAGACTTGTACTCGTAGGGATGCTTGGGTGGGGA
*
6499745 TGGAGGTGGTGGTGGAGGAGACTTGTACTCGTAGGGATGCTTGGGTGG
1 TGGAGGTGGTGGAGGAGGAGACTTGTACTCGTAGGGATGCTTGGGTGG
6499793 TGGTGGTGGA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.13, C:0.07, G:0.52, T:0.28
Consensus pattern (51 bp):
TGGAGGTGGTGGAGGAGGAGACTTGTACTCGTAGGGATGCTTGGGTGGGGA
Found at i:6499867 original size:39 final size:39
Alignment explanation
Indices: 6499749--6499876 Score: 129
Period size: 39 Copynumber: 3.4 Consensus size: 39
6499739 TGGGGATGGA
* *
6499749 GGTGGTGGTGGAGGAGACTTGTACTCGT-AGGGATGCTTG
1 GGTGGTGGTGGTGGAGACTTGTACTTGTAAGGG-TGCTTG
* ** **
6499788 GGTGGTGGTGGTGGAGACTTATACTTGTAA-ACTG--AA
1 GGTGGTGGTGGTGGAGACTTGTACTTGTAAGGGTGCTTG
* *
6499824 GGTGGTGGGGGTGGAGAATTGTACTTGTAAGGGTGCTTG
1 GGTGGTGGTGGTGGAGACTTGTACTTGTAAGGGTGCTTG
*
6499863 GGTGGTGATGGTGG
1 GGTGGTGGTGGTGG
6499877 GGGTGGGGAC
Statistics
Matches: 69, Mismatches: 16, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
36 27 0.39
37 2 0.03
38 2 0.03
39 37 0.54
40 1 0.01
ACGTcount: A:0.17, C:0.07, G:0.46, T:0.30
Consensus pattern (39 bp):
GGTGGTGGTGGTGGAGACTTGTACTTGTAAGGGTGCTTG
Found at i:6499875 original size:45 final size:45
Alignment explanation
Indices: 6499826--6500103 Score: 362
Period size: 45 Copynumber: 6.1 Consensus size: 45
6499816 AAACTGAAGG
* * *
6499826 TGGTGGGGGTGGAGAATTGTACTTGTAAGGGTGCTTGGGTGGTGA
1 TGGTGGGGGTGGGGACTTGTACTCGTAAGGGTGCTTGGGTGGTGA
* * *
6499871 TGGTGGGGGTGGGGACTTGTACTCATAGGGGTGTTTGGGTGGTGA
1 TGGTGGGGGTGGGGACTTGTACTCGTAAGGGTGCTTGGGTGGTGA
* *
6499916 TGGTGGGGGTGGGGACTTGTACTCGTAGGGGTGTTTGGGTGGTGA
1 TGGTGGGGGTGGGGACTTGTACTCGTAAGGGTGCTTGGGTGGTGA
* *
6499961 TGGTGGTGGAGGCGGGGACTTGTACTTGT-AGGGATGCTTGGGTGGTGA
1 TGGT-G-GG-GGTGGGGACTTGTACTCGTAAGGG-TGCTTGGGTGGTGA
* * *
6500009 TGGTGGGGGTGGGGATTTGTACTCGTAGGGGTGTTTGGGTGGTGA
1 TGGTGGGGGTGGGGACTTGTACTCGTAAGGGTGCTTGGGTGGTGA
* *
6500054 TGGTGGTGGTGGGGACTTGTACTTGT-AGGGATGCTTGGGTGGTGA
1 TGGTGGGGGTGGGGACTTGTACTCGTAAGGG-TGCTTGGGTGGTGA
6500099 TGGTG
1 TGGTG
6500104 AAGGAGGTGG
Statistics
Matches: 206, Mismatches: 21, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
44 3 0.01
45 157 0.76
46 6 0.03
47 6 0.03
48 34 0.17
ACGTcount: A:0.11, C:0.06, G:0.51, T:0.32
Consensus pattern (45 bp):
TGGTGGGGGTGGGGACTTGTACTCGTAAGGGTGCTTGGGTGGTGA
Found at i:6499927 original size:126 final size:126
Alignment explanation
Indices: 6499664--6500080 Score: 425
Period size: 126 Copynumber: 3.2 Consensus size: 126
6499654 CATAATGGGG
* * * *
6499664 TGGTGGTGGTGGAGACTTGTACTTGTAAACTGGAGGTGGTGGAGGTGGTGACTTGTACTTGTAGG
1 TGGTGGTGGTGGAGACTTGTACTTGTAAACTGAAGGTGGTGGGGGTGGAGACTTGTACTTGTAAG
* * * *
6499729 GGTGCTTGGGTGGGGATGGAGGTGGTGGTGGAGGAGACTTGTACTCGTAGGGATG-CT---TGG-
66 GGTGCTTGGGTGGTGAT---GGTGGGGGT-G-GG-GACTTGTACTCGTAGGGGTGTTTGGGTGGT
6499789 G-
125 GA
* *
6499790 TGGTGGTGGTGGAGACTTATACTTGTAAACTGAAGGTGGTGGGGGTGGAGAATTGTACTTGTAAG
1 TGGTGGTGGTGGAGACTTGTACTTGTAAACTGAAGGTGGTGGGGGTGGAGACTTGTACTTGTAAG
*
6499855 GGTGCTTGGGTGGTGATGGTGGGGGTGGGGACTTGTACTCATAGGGGTGTTTGGGTGGTGA
66 GGTGCTTGGGTGGTGATGGTGGGGGTGGGGACTTGTACTCGTAGGGGTGTTTGGGTGGTGA
* * * *** **
6499916 TGGTGGGGGTGGGGACTTGTACTCGTAGGGGTGTTTGGGTGGTGATGGTGGTGGAGGCGGGGACT
1 TGGTGGTGGTGGAGACTTGTACTTGTA-AACTG--AAGGTGGTG--GG-GGTGGA------GACT
*
6499981 TGTACTTGT-AGGGATGCTTGGGTGGTGATGGTGGGGGTGGGGATTTGTACTCGTAGGGGTGTTT
54 TGTACTTGTAAGGG-TGCTTGGGTGGTGATGGTGGGGGTGGGGACTTGTACTCGTAGGGGTGTTT
6500045 GGGTGGTGA
118 GGGTGGTGA
*
6500054 TGGTGGTGGTGGGGACTTGTACTTGTA
1 TGGTGGTGGTGGAGACTTGTACTTGTA
6500081 GGGATGCTTG
Statistics
Matches: 247, Mismatches: 25, Indels: 26
0.83 0.08 0.09
Matches are distributed among these distances:
120 18 0.07
121 3 0.01
122 1 0.00
123 8 0.03
124 3 0.01
125 1 0.00
126 98 0.40
127 2 0.01
129 7 0.03
131 2 0.01
132 6 0.02
137 4 0.02
138 94 0.38
ACGTcount: A:0.14, C:0.07, G:0.48, T:0.31
Consensus pattern (126 bp):
TGGTGGTGGTGGAGACTTGTACTTGTAAACTGAAGGTGGTGGGGGTGGAGACTTGTACTTGTAAG
GGTGCTTGGGTGGTGATGGTGGGGGTGGGGACTTGTACTCGTAGGGGTGTTTGGGTGGTGA
Found at i:6499990 original size:138 final size:138
Alignment explanation
Indices: 6499824--6500103 Score: 454
Period size: 138 Copynumber: 2.0 Consensus size: 138
6499814 GTAAACTGAA
* *
6499824 GGTGGTGGGGGTGGAGAATTGTACTTGTAAGGG-TGCTTGGGTGGTGATGGTGGGGGTGGGGACT
1 GGTGGTGGAGGCGGAGAATTGTACTTGT-AGGGATGCTTGGGTGGTGATGGTGGGGGTGGGGACT
* *
6499888 TGTACTCATAGGGGTGTTTGGGTGGTGATGGTGGGGGTGGGGACTTGTACTCGTAGGGGTGTTTG
65 TGTACTCATAGGGGTGTTTGGGTGGTGATGGTGGGGGTGGGGACTTGTACTCGTAGGGATGCTTG
6499953 GGTGGTGAT
130 GGTGGTGAT
* * *
6499962 GGTGGTGGAGGCGGGGACTTGTACTTGTAGGGATGCTTGGGTGGTGATGGTGGGGGTGGGGATTT
1 GGTGGTGGAGGCGGAGAATTGTACTTGTAGGGATGCTTGGGTGGTGATGGTGGGGGTGGGGACTT
* * *
6500027 GTACTCGTAGGGGTGTTTGGGTGGTGATGGTGGTGGTGGGGACTTGTACTTGTAGGGATGCTTGG
66 GTACTCATAGGGGTGTTTGGGTGGTGATGGTGGGGGTGGGGACTTGTACTCGTAGGGATGCTTGG
6500092 GTGGTGAT
131 GTGGTGAT
6500100 GGTG
1 GGTG
6500104 AAGGAGGTGG
Statistics
Matches: 131, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
137 4 0.03
138 127 0.97
ACGTcount: A:0.11, C:0.06, G:0.51, T:0.31
Consensus pattern (138 bp):
GGTGGTGGAGGCGGAGAATTGTACTTGTAGGGATGCTTGGGTGGTGATGGTGGGGGTGGGGACTT
GTACTCATAGGGGTGTTTGGGTGGTGATGGTGGGGGTGGGGACTTGTACTCGTAGGGATGCTTGG
GTGGTGAT
Found at i:6500113 original size:93 final size:90
Alignment explanation
Indices: 6499826--6500103 Score: 421
Period size: 90 Copynumber: 3.1 Consensus size: 90
6499816 AAACTGAAGG
* * * * *
6499826 TGGTGGGGGTGGAGAATTGTACTTGTAAGGGTGCTTGGGTGGTGATGGTGGGGGTGGGGACTTGT
1 TGGTGGGGGTGGGGAATTGTACTCGTAGGGGTGTTTGGGTGGTGATGGTGGTGGTGGGGACTTGT
** * *
6499891 ACTCATAGGGGTGTTTGGGTGGTGA
66 ACTTGTAGGGATGCTTGGGTGGTGA
* *
6499916 TGGTGGGGGTGGGGACTTGTACTCGTAGGGGTGTTTGGGTGGTGATGGTGGTGGAGGCGGGGACT
1 TGGTGGGGGTGGGGAATTGTACTCGTAGGGGTGTTTGGGTGGTGATGGTGGT---GGTGGGGACT
6499981 TGTACTTGTAGGGATGCTTGGGTGGTGA
63 TGTACTTGTAGGGATGCTTGGGTGGTGA
*
6500009 TGGTGGGGGTGGGGATTTGTACTCGTAGGGGTGTTTGGGTGGTGATGGTGGTGGTGGGGACTTGT
1 TGGTGGGGGTGGGGAATTGTACTCGTAGGGGTGTTTGGGTGGTGATGGTGGTGGTGGGGACTTGT
6500074 ACTTGTAGGGATGCTTGGGTGGTGA
66 ACTTGTAGGGATGCTTGGGTGGTGA
6500099 TGGTG
1 TGGTG
6500104 AAGGAGGTGG
Statistics
Matches: 172, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
90 88 0.51
93 84 0.49
ACGTcount: A:0.11, C:0.06, G:0.51, T:0.32
Consensus pattern (90 bp):
TGGTGGGGGTGGGGAATTGTACTCGTAGGGGTGTTTGGGTGGTGATGGTGGTGGTGGGGACTTGT
ACTTGTAGGGATGCTTGGGTGGTGA
Found at i:6500145 original size:138 final size:136
Alignment explanation
Indices: 6499862--6500145 Score: 383
Period size: 138 Copynumber: 2.1 Consensus size: 136
6499852 AAGGGTGCTT
6499862 GGGTGGTGATGGTGGGGGTGGGGACTTGTACTCATAGGGGTGTTTGGGTGGTGATGGTGGGGGTG
1 GGGTGGTGATGGTGGGGGTGGGGACTTGTACTCATAGGGGTGTTTGGGTGGTGATGGTGGGGGTG
* * ** *
6499927 GGGACTTGTACTCGTAGGGGTGTTTGGGTGGTGATGGTGGTGGAGGCGGGGACTTGTACTTGTAG
66 GGGACTTGTACTCGTAGGGATGCTTGGGTGGTGATGGTGAAGGAGGCGGGGACTTATACTTGTA-
* **
6499992 GGATGCTT
130 -GATACAG
* * *
6500000 GGGTGGTGATGGTGGGGGTGGGGATTTGTACTCGTAGGGGTGTTTGGGTGGTGATGGTGGTGGTG
1 GGGTGGTGATGGTGGGGGTGGGGACTTGTACTCATAGGGGTGTTTGGGTGGTGATGGTGGGGGTG
* *
6500065 GGGACTTGTACTTGTAGGGATGCTTGGGTGGTGATGGTGAAGGAGGTGGTGGAGACTTATACTTG
66 GGGACTTGTACTCGTAGGGATGCTTGGGTGGTGATGGTGAAGGAGG-CG-GG-GACTTATACTTG
6500130 TA-A-ACAG
128 TAGATACAG
6500137 GGGTTGGTG
1 GGG-TGGTG
6500146 GGGGAGGAGA
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
137 4 0.03
138 109 0.84
139 1 0.01
140 2 0.02
141 13 0.10
ACGTcount: A:0.13, C:0.06, G:0.50, T:0.31
Consensus pattern (136 bp):
GGGTGGTGATGGTGGGGGTGGGGACTTGTACTCATAGGGGTGTTTGGGTGGTGATGGTGGGGGTG
GGGACTTGTACTCGTAGGGATGCTTGGGTGGTGATGGTGAAGGAGGCGGGGACTTATACTTGTAG
ATACAG
Found at i:6503404 original size:39 final size:39
Alignment explanation
Indices: 6503361--6503498 Score: 120
Period size: 39 Copynumber: 3.5 Consensus size: 39
6503351 GAAGATTTCG
*
6503361 ATCTCTTACCTCGAGCCTAGGACAGATCATCATCAGCCA
1 ATCTCTTACCTCGAGCCTGGGACAGATCATCATCAGCCA
* * * * *
6503400 ATCTCTTACCCCGAGCCTGGGGCAGAT--TGCAGCCGTCCG
1 ATCTCTTACCTCGAGCCTGGGACAGATCAT-CATCAG-CCA
* * * * *
6503439 ATCTTTTACC-CTAAGCCTGGGACAAATCACCATCAACCA
1 ATCTCTTACCTC-GAGCCTGGGACAGATCATCATCAGCCA
*
6503478 ATCTCTTACCTCGAGCTTGGG
1 ATCTCTTACCTCGAGCCTGGG
6503499 GTAGATTGCA
Statistics
Matches: 75, Mismatches: 18, Indels: 12
0.71 0.17 0.11
Matches are distributed among these distances:
37 1 0.01
38 5 0.07
39 65 0.87
40 4 0.05
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (39 bp):
ATCTCTTACCTCGAGCCTGGGACAGATCATCATCAGCCA
Found at i:6503448 original size:78 final size:78
Alignment explanation
Indices: 6503359--6503543 Score: 228
Period size: 78 Copynumber: 2.4 Consensus size: 78
6503349 TTGAAGATTT
* * * *
6503359 CGATCTCTTACCTCGAGCCTAGGACAGATCATCATCAGCCAATCTCTTACCCCGAGCCTGGGGCA
1 CGATCTTTTACCTCGAGCCTAGGACAAATCACCATCAACCAATCTCTTACCCCGAGCCTGGGGCA
*
6503424 GATTGCAGCCGTC
66 GATTGCAGCCATC
* * * * *
6503437 CGATCTTTTACC-CTAAGCCTGGGACAAATCACCATCAACCAATCTCTTACCTCGAGCTTGGGGT
1 CGATCTTTTACCTC-GAGCCTAGGACAAATCACCATCAACCAATCTCTTACCCCGAGCCTGGGGC
*
6503501 AGATTGCAGCCATT
65 AGATTGCAGCCATC
* * *
6503515 CGATATTTTACCTCGAGCTTGGGACAAAT
1 CGATCTTTTACCTCGAGCCTAGGACAAAT
6503544 AATTTTTTGT
Statistics
Matches: 91, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
77 1 0.01
78 89 0.98
79 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.25
Consensus pattern (78 bp):
CGATCTTTTACCTCGAGCCTAGGACAAATCACCATCAACCAATCTCTTACCCCGAGCCTGGGGCA
GATTGCAGCCATC
Found at i:6503905 original size:70 final size:70
Alignment explanation
Indices: 6503792--6503928 Score: 238
Period size: 70 Copynumber: 2.0 Consensus size: 70
6503782 TAAATACTTG
* * *
6503792 TCAAACACATGAACCAATTTAAGTAACGTTATTAGTCCAAGATGAAAGTGGCAACTAATGTTGAA
1 TCAAACACATGAACCAATTTAACTAACGTCATTAATCCAAGATGAAAGTGGCAACTAATGTTGAA
6503857 TATTC
66 TATTC
*
6503862 TCAAACACATGAACCAATTTGACTAACGTCATTAATCCAAGATGAAAGTGGCAACTAATGTTGAA
1 TCAAACACATGAACCAATTTAACTAACGTCATTAATCCAAGATGAAAGTGGCAACTAATGTTGAA
6503927 TA
66 TA
6503929 AGAAGCCCAA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 63 1.00
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (70 bp):
TCAAACACATGAACCAATTTAACTAACGTCATTAATCCAAGATGAAAGTGGCAACTAATGTTGAA
TATTC
Found at i:6504136 original size:46 final size:47
Alignment explanation
Indices: 6504084--6504173 Score: 155
Period size: 47 Copynumber: 1.9 Consensus size: 47
6504074 TTTATGTTTA
* *
6504084 AAAGATGTG-TTTTTGGGTAAATTTTAAAAGATGGTTTTTATTTATC
1 AAAGATGTGTTTTTTGGGTAAATTTTAAAAGAAGATTTTTATTTATC
6504130 AAAGATGTGTTTTTTGGGTAAATTTTAAAAGAAGATTTTTATTT
1 AAAGATGTGTTTTTTGGGTAAATTTTAAAAGAAGATTTTTATTT
6504174 TTCTTTCCTA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
46 9 0.22
47 32 0.78
ACGTcount: A:0.32, C:0.01, G:0.19, T:0.48
Consensus pattern (47 bp):
AAAGATGTGTTTTTTGGGTAAATTTTAAAAGAAGATTTTTATTTATC
Found at i:6505344 original size:51 final size:51
Alignment explanation
Indices: 6505268--6505365 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
6505258 CTTGTAAACA
* * *
6505268 GGAGGTGGTGGAGGTGGAGACTTGTACTTGTAAGG-GTGCTTGGGTGGGGAT
1 GGAGGTGGTGGAGGGGGAGACTTGTACTCGT-AGGCATGCTTGGGTGGGGAT
*
6505319 GGAGGTGGTGGTGGGGGAGACTTGTACTCGTAGGCATGCTTGGGTGG
1 GGAGGTGGTGGAGGGGGAGACTTGTACTCGTAGGCATGCTTGGGTGG
6505366 TGGTGGTGGA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 3 0.07
51 39 0.93
ACGTcount: A:0.14, C:0.08, G:0.51, T:0.27
Consensus pattern (51 bp):
GGAGGTGGTGGAGGGGGAGACTTGTACTCGTAGGCATGCTTGGGTGGGGAT
Found at i:6505497 original size:126 final size:124
Alignment explanation
Indices: 6505234--6505494 Score: 377
Period size: 126 Copynumber: 2.1 Consensus size: 124
6505224 AGACATAATG
*
6505234 GGGTGGTGGTGGTGGAGACTTGTACTTGTAAACAGGAGGTGGTGGAGGTGGAGACTTGTACTTGT
1 GGGTGGTGGTGGTGGAGACTTATACTTGTAAACAGGAGGTGGTGGAGGTGGAGACTTGTACTTGT
* * *
6505299 AAGGGTGCTTGGGTGGGGATGGAGGTGGTGGTGGGGGAGACTTGTACTCGTAGGCATGCTT
66 AAGGGTGCTTGGGTGGGGAT-G-GGTGGTGGTGGGGGAGACTTGTACTCATAAGAATGCTT
* * *
6505360 GGGTGGTGGTGGTGGAGACTTATATTTGTAAACTGGAGGTGGTGGGGGTGGAGACTTGTACTTGT
1 GGGTGGTGGTGGTGGAGACTTATACTTGTAAACAGGAGGTGGTGGAGGTGGAGACTTGTACTTGT
* * *
6505425 AAGGGTGCTTGGGTGGTGAT-GGTGG-GG-GTGGG-GACTTGTACTCATAAGAATGTTT
66 AAGGGTGCTTGGGTGGGGATGGGTGGTGGTGGGGGAGACTTGTACTCATAAGAATGCTT
*
6505480 GGGTGGTGATGGTGG
1 GGGTGGTGGTGGTGG
6505495 TGGAGGTGGG
Statistics
Matches: 124, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
120 33 0.27
121 4 0.03
122 2 0.02
123 5 0.04
126 80 0.65
ACGTcount: A:0.16, C:0.07, G:0.47, T:0.30
Consensus pattern (124 bp):
GGGTGGTGGTGGTGGAGACTTATACTTGTAAACAGGAGGTGGTGGAGGTGGAGACTTGTACTTGT
AAGGGTGCTTGGGTGGGGATGGGTGGTGGTGGGGGAGACTTGTACTCATAAGAATGCTT
Found at i:6505503 original size:93 final size:93
Alignment explanation
Indices: 6505397--6505722 Score: 507
Period size: 93 Copynumber: 3.5 Consensus size: 93
6505387 GTAAACTGGA
* *
6505397 GGTGGTGGGGGTGGAGACTTGTACTTGTAAGGG-TGCTTGGGTGGTGATGGTGGGGGTGGGGACT
1 GGTGGTGGTGGTGGAGACTTGTACTTGT-AGGGATGCTTGGGTGGTGATGGTGGGGGTGGGGATT
* * **
6505461 TGTACTCATAAGAATGTTTGGGTGGTGAT
65 TGTACTCGTAGGGGTGTTTGGGTGGTGAT
* *
6505490 GGTGGTGGAGGTGGGGACTTGTACTTGTAGGGATGCTTGGGTGGTGATGGTGGGGGTGGGGATTT
1 GGTGGTGGTGGTGGAGACTTGTACTTGTAGGGATGCTTGGGTGGTGATGGTGGGGGTGGGGATTT
6505555 GTACTCGTAGGGGTGTTTGGGTGGTGAT
66 GTACTCGTAGGGGTGTTTGGGTGGTGAT
* * *
6505583 GGCGGTGGTGGAGGGGACTTGTACTTGTAGGGATGCTTGGGTGGTGATGGTGGGGGTGGGGATTT
1 GGTGGTGGTGGTGGAGACTTGTACTTGTAGGGATGCTTGGGTGGTGATGGTGGGGGTGGGGATTT
6505648 GTACTCGTAGGGGTGTTTGGGTGGTGAT
66 GTACTCGTAGGGGTGTTTGGGTGGTGAT
*
6505676 GGTGGTGGTGG-GGA-TC-TGTACTTGTAGGGATGCTTGGGTGGTGATGG
1 GGTGGTGGTGGTGGAGACTTGTACTTGTAGGGATGCTTGGGTGGTGATGG
6505723 GGAAGGAGGT
Statistics
Matches: 219, Mismatches: 13, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
90 31 0.14
91 1 0.00
92 6 0.03
93 181 0.83
ACGTcount: A:0.12, C:0.06, G:0.50, T:0.32
Consensus pattern (93 bp):
GGTGGTGGTGGTGGAGACTTGTACTTGTAGGGATGCTTGGGTGGTGATGGTGGGGGTGGGGATTT
GTACTCGTAGGGGTGTTTGGGTGGTGAT
Found at i:6505511 original size:48 final size:47
Alignment explanation
Indices: 6505397--6505722 Score: 384
Period size: 45 Copynumber: 7.0 Consensus size: 47
6505387 GTAAACTGGA
* *
6505397 GGTGGTGGGGGTGGAGACTTGTACTTGTAAGGG-TGCTTGGGTGGTGAT
1 GGTGGT-GGGGTGGGGACTTGTACTCGT-AGGGATGCTTGGGTGGTGAT
* * * *
6505445 GGT-G-GGGGTGGGGACTTGTACTCATAAGAATGTTTGGGTGGTGAT
1 GGTGGTGGGGTGGGGACTTGTACTCGTAGGGATGCTTGGGTGGTGAT
*
6505490 GGTGGTGGAGGTGGGGACTTGTACTTGTAGGGATGCTTGGGTGGTGAT
1 GGTGGTGG-GGTGGGGACTTGTACTCGTAGGGATGCTTGGGTGGTGAT
* * *
6505538 GGT-G-GGGGTGGGGATTTGTACTCGTAGGGGTGTTTGGGTGGTGAT
1 GGTGGTGGGGTGGGGACTTGTACTCGTAGGGATGCTTGGGTGGTGAT
* * *
6505583 GGCGGTGGTGGAGGGGACTTGTACTTGTAGGGATGCTTGGGTGGTGAT
1 GGTGGTGG-GGTGGGGACTTGTACTCGTAGGGATGCTTGGGTGGTGAT
* * *
6505631 GGT-G-GGGGTGGGGATTTGTACTCGTAGGGGTGTTTGGGTGGTGAT
1 GGTGGTGGGGTGGGGACTTGTACTCGTAGGGATGCTTGGGTGGTGAT
*
6505676 GGTGGT--GGTGGGGA-TCTGTACTTGTAGGGATGCTTGGGTGGTGAT
1 GGTGGTGGGGTGGGGACT-TGTACTCGTAGGGATGCTTGGGTGGTGAT
6505721 GG
1 GG
6505723 GGAAGGAGGT
Statistics
Matches: 238, Mismatches: 30, Indels: 23
0.82 0.10 0.08
Matches are distributed among these distances:
44 3 0.01
45 145 0.61
46 7 0.03
47 7 0.03
48 76 0.32
ACGTcount: A:0.12, C:0.06, G:0.50, T:0.32
Consensus pattern (47 bp):
GGTGGTGGGGTGGGGACTTGTACTCGTAGGGATGCTTGGGTGGTGAT
Found at i:6505569 original size:138 final size:135
Alignment explanation
Indices: 6505399--6505722 Score: 423
Period size: 138 Copynumber: 2.4 Consensus size: 135
6505389 AAACTGGAGG
* * * *
6505399 TGGTGGGGGTGGAGACTTGTACTTGTAAGGGTGCTTGGGTGGTGATGGTGGGGGTGGGGACTTGT
1 TGGTGGGGGTGGGGATTTGTACTTGTAGGGGTGCTTGGGTGGTGATGGTGGGGGAGGGGACTTGT
* *
6505464 ACTCATAAGAATGTTTGGGTGGTGATGGTGGTGGAGGTGGGGACTTGTACTTGTAGGGATGCTTG
66 ACTCATAAGAATGCTTGGGTGGTGATGGT-G-GG-GGTGGGGACTTGTACTCGTAGGGATGCTTG
6505529 GGTGGTGA
128 GGTGGTGA
* * *
6505537 TGGTGGGGGTGGGGATTTGTACTCGTAGGGGTGTTTGGGTGGTGATGGCGGTGGTGGAGGGGACT
1 TGGTGGGGGTGGGGATTTGTACTTGTAGGGGTGCTTGGGTGGTGAT---GGTGGGGGAGGGGACT
** * * * * *
6505602 TGTACTTGTAGGGATGCTTGGGTGGTGATGGTGGGGGTGGGGATTTGTACTCGTAGGGGTGTTTG
63 TGTACTCATAAGAATGCTTGGGTGGTGATGGTGGGGGTGGGGACTTGTACTCGTAGGGATGCTTG
6505667 GGTGGTGA
128 GGTGGTGA
* * *
6505675 TGGTGGTGGTGGGGATCTGTACTTGTAGGGATGCTTGGGTGGTGATGG
1 TGGTGGGGGTGGGGATTTGTACTTGTAGGGGTGCTTGGGTGGTGATGG
6505723 GGAAGGAGGT
Statistics
Matches: 162, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
135 2 0.01
138 116 0.72
139 2 0.01
140 1 0.01
141 41 0.25
ACGTcount: A:0.12, C:0.06, G:0.50, T:0.32
Consensus pattern (135 bp):
TGGTGGGGGTGGGGATTTGTACTTGTAGGGGTGCTTGGGTGGTGATGGTGGGGGAGGGGACTTGT
ACTCATAAGAATGCTTGGGTGGTGATGGTGGGGGTGGGGACTTGTACTCGTAGGGATGCTTGGGT
GGTGA
Found at i:6505766 original size:138 final size:135
Alignment explanation
Indices: 6505492--6505752 Score: 333
Period size: 138 Copynumber: 1.9 Consensus size: 135
6505482 GTGGTGATGG
* *
6505492 TGGTGGAGGTGGGGACTTGTACTTGTAGGGATGCTTGGGTGGTGATGGTGGGGGTGGGGATTTGT
1 TGGTGGAGGTGGGGACTTGTACTCGTAGGGATGCTTGGGTGGTGATGGTGGGGGTGGGGATCTGT
* * * * * *
6505557 ACTCGTAGGGGTGTTTGGGTGGTGATGGCGGTGGTGGAGGGGACTTGTACTTGTAGGGATGCTTG
66 ACTCGTAGGGATGCTTGGGTGGTGATGGAGGAGGTGGAGGAGACTTATACTTGTAGGGATGC-T-
6505622 GGTGGTGA
129 -GTGGTGA
* * * * *
6505630 TGGTGGGGGTGGGGATTTGTACTCGTAGGGGTGTTTGGGTGGTGATGGTGGTGGTGGGGATCTGT
1 TGGTGGAGGTGGGGACTTGTACTCGTAGGGATGCTTGGGTGGTGATGGTGGGGGTGGGGATCTGT
* *
6505695 ACTTGTAGGGATGCTTGGGTGGTGATGGGGAAGGAGGTGGTGGAGACTTATACTTGTA
66 ACTCGTAGGGATGCTTGGGTGGTGAT--GG-AGGAGGTGGAGGAGACTTATACTTGTA
6505753 AACGGGAGTT
Statistics
Matches: 105, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
138 81 0.77
140 2 0.02
141 22 0.21
ACGTcount: A:0.13, C:0.06, G:0.50, T:0.31
Consensus pattern (135 bp):
TGGTGGAGGTGGGGACTTGTACTCGTAGGGATGCTTGGGTGGTGATGGTGGGGGTGGGGATCTGT
ACTCGTAGGGATGCTTGGGTGGTGATGGAGGAGGTGGAGGAGACTTATACTTGTAGGGATGCTGT
GGTGA
Found at i:6511764 original size:23 final size:23
Alignment explanation
Indices: 6511700--6511764 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
6511690 AACATTATTT
*
6511700 GTGAACATGTTTAATTATATGTTC
1 GTGAACATGTTCAATTA-ATGTTC
* **
6511724 ATGAACATGTTCGTTTAATGTTC
1 GTGAACATGTTCAATTAATGTTC
6511747 GTGAACATGTTCAATTAA
1 GTGAACATGTTCAATTAA
6511765 GTTAAATGAA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
23 21 0.62
24 13 0.38
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.42
Consensus pattern (23 bp):
GTGAACATGTTCAATTAATGTTC
Found at i:6515394 original size:36 final size:36
Alignment explanation
Indices: 6515354--6515471 Score: 114
Period size: 36 Copynumber: 3.2 Consensus size: 36
6515344 GAATGGAGGT
*
6515354 GGTGGTGGG-GGAGACTTGTACTCGTAGGCATGCTTG
1 GGTGGTGGGTGGAGACTTGTACTTGTAGGC-TGCTTG
* ** ***
6515390 GGTGGTGTTGGTGGAGACTTATACTTGTAAACTGGAGG
1 GGTGGTG--GGTGGAGACTTGTACTTGTAGGCTGCTTG
6515428 TGGTGG-GGGTGGAGACTTGTACTTGTAAGGCTGCTTG
1 -GGTGGTGGGTGGAGACTTGTACTTGT-AGGCTGCTTG
6515465 GGTGGTG
1 GGTGGTG
6515472 ATGGTGGGGG
Statistics
Matches: 63, Mismatches: 13, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
36 30 0.48
37 6 0.10
38 6 0.10
39 21 0.33
ACGTcount: A:0.15, C:0.10, G:0.44, T:0.31
Consensus pattern (36 bp):
GGTGGTGGGTGGAGACTTGTACTTGTAGGCTGCTTG
Found at i:6515394 original size:39 final size:39
Alignment explanation
Indices: 6515351--6515471 Score: 119
Period size: 39 Copynumber: 3.2 Consensus size: 39
6515341 TAGGAATGGA
*
6515351 GGTGGTGGTGGGGGAGACTTGTACTCGTAGGCATGCTTG
1 GGTGGTGGTGGGGGAGACTTGTACTTGTAGGCATGCTTG
* * * * *
6515390 GGTGGTGTTGGTGGAGACTTATACTTGTA---A-ACTGG
1 GGTGGTGGTGGGGGAGACTTGTACTTGTAGGCATGCTTG
6515425 AGGTGGTGG-GGGTGGAGACTTGTACTTGTAAGGC-TGCTTG
1 -GGTGGTGGTGGG-GGAGACTTGTACTTGT-AGGCATGCTTG
6515465 GGTGGTG
1 GGTGGTG
6515472 ATGGTGGGGG
Statistics
Matches: 64, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
35 5 0.08
36 23 0.36
37 1 0.02
39 32 0.50
40 3 0.05
ACGTcount: A:0.15, C:0.10, G:0.45, T:0.31
Consensus pattern (39 bp):
GGTGGTGGTGGGGGAGACTTGTACTTGTAGGCATGCTTG
Found at i:6515478 original size:45 final size:45
Alignment explanation
Indices: 6515428--6515696 Score: 261
Period size: 45 Copynumber: 6.1 Consensus size: 45
6515418 AAACTGGAGG
* * * *
6515428 TGGTGGGGGTGGAGACTTGTACTTGTAAGGCTGCTTGGGTGGTGA
1 TGGTGGGGGTGGGGACTTGTACTCGTAGGGGTGCTTGGGTGGTGA
* *
6515473 TGGTGGGGGTGGGGACTTGTACTCATATGGGTG-TT---TGG-G-
1 TGGTGGGGGTGGGGACTTGTACTCGTAGGGGTGCTTGGGTGGTGA
* * * *
6515512 T--T-GTGGTAGGGACTTGTACTCGTAGGGGTGTTTCGGTGGTGA
1 TGGTGGGGGTGGGGACTTGTACTCGTAGGGGTGCTTGGGTGGTGA
* *
6515554 TGGTGGTGATGGTGGGGACTTGTACTTGTAGGGATGCTTGGGTGGTGA
1 TGGTGG-G--GGTGGGGACTTGTACTCGTAGGGGTGCTTGGGTGGTGA
* * * *
6515602 TGGTGGGGGTGGGGATTTGTACTCGTAGTGGTGTTTGGGCGGTGA
1 TGGTGGGGGTGGGGACTTGTACTCGTAGGGGTGCTTGGGTGGTGA
* * *
6515647 TGGTGGTGGTGGAGACTTGTACAT-GTAGGGATGCTTGGGTGGTGA
1 TGGTGGGGGTGGGGACTTGTAC-TCGTAGGGGTGCTTGGGTGGTGA
6515692 TGGTG
1 TGGTG
6515697 ACGGAGGTGG
Statistics
Matches: 183, Mismatches: 28, Indels: 26
0.77 0.12 0.11
Matches are distributed among these distances:
36 24 0.13
37 3 0.02
39 1 0.01
40 4 0.02
41 4 0.02
42 1 0.01
44 3 0.02
45 102 0.56
46 1 0.01
47 1 0.01
48 39 0.21
ACGTcount: A:0.12, C:0.07, G:0.48, T:0.33
Consensus pattern (45 bp):
TGGTGGGGGTGGGGACTTGTACTCGTAGGGGTGCTTGGGTGGTGA
Found at i:6515599 original size:81 final size:80
Alignment explanation
Indices: 6515441--6515597 Score: 190
Period size: 81 Copynumber: 1.9 Consensus size: 80
6515431 TGGGGGTGGA
* *
6515441 GACTTGTACTTGTAAGGCTGCTTGGGTGGTGATGGTGGGGGTGGGGACTTGTACTCATATGGGTG
1 GACTTGTACTCGTAAGGCTGCTTCGGTGGTGATGGTGGGGGTGGGGACTTGTACTCATATGGGTG
*
6515506 TTTGGGTTGTGGTAGG
66 CTTGGG-TGTGGTAGG
* * * **
6515522 GACTTGTACTCGTAGGGGTGTTTCGGTGGTGATGGTGGTGATGGTGGGGACTTGTACTTGTA-GG
1 GACTTGTACTCGTAAGGCTGCTTCGGTGGTGATGGTGG-G--GGTGGGGACTTGTACTCATATGG
6515586 GATGCTTGGGTG
63 G-TGCTTGGGTG
6515598 GTGATGGTGG
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
81 33 0.52
82 1 0.02
83 5 0.08
84 25 0.39
ACGTcount: A:0.12, C:0.09, G:0.45, T:0.34
Consensus pattern (80 bp):
GACTTGTACTCGTAAGGCTGCTTCGGTGGTGATGGTGGGGGTGGGGACTTGTACTCATATGGGTG
CTTGGGTGTGGTAGG
Found at i:6517729 original size:30 final size:30
Alignment explanation
Indices: 6517660--6517862 Score: 169
Period size: 30 Copynumber: 6.8 Consensus size: 30
6517650 AAAATGTAAA
* *
6517660 TTTAGAAAGTTTAGGGGTCAAAATGTAGTT
1 TTTAGAAAGTTTAGGGGTCAAAATATAATT
* * * * *
6517690 TTCAAAAAGTTCAAGGGTCAAAATATGATT
1 TTTAGAAAGTTTAGGGGTCAAAATATAATT
* * * *
6517720 TTTAGAAAGTTTGGGGGTCACAGT-TGAAGT
1 TTTAGAAAGTTTAGGGGTCAAAATAT-AATT
*
6517750 TTTGGAAAGTTTAGGGGTC-AAATATAATT
1 TTTAGAAAGTTTAGGGGTCAAAATATAATT
6517779 TTTAGAAAGTTT-GGAGGTCAAAATATAATTT
1 TTTAGAAAGTTTAGG-GGTCAAAATATAA-TT
* * * * ** *
6517810 TTTTGAAAATTTGGGGGTCGAAATCGAAGT
1 TTTAGAAAGTTTAGGGGTCAAAATATAATT
* *
6517840 TTTAGAAAGTTCAGGGGTTAAAA
1 TTTAGAAAGTTTAGGGGTCAAAA
6517863 CAAAATTTCT
Statistics
Matches: 133, Mismatches: 34, Indels: 12
0.74 0.19 0.07
Matches are distributed among these distances:
28 2 0.02
29 21 0.16
30 86 0.65
31 22 0.17
32 2 0.02
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.34
Consensus pattern (30 bp):
TTTAGAAAGTTTAGGGGTCAAAATATAATT
Found at i:6517812 original size:90 final size:90
Alignment explanation
Indices: 6517660--6517862 Score: 232
Period size: 90 Copynumber: 2.3 Consensus size: 90
6517650 AAAATGTAAA
* * *
6517660 TTTAGAAAGTTTAGGGGTCAAAATGTAGTTTTCAAAAAGTTCAAGGGTCAAAATATGATTTTTAG
1 TTTAGAAAGTTTAGGGGTCAAAATATAATTTTCAAAAAGTTCAAGGGTCAAAATATAATTTTTAG
* * *
6517725 AAAGTTTGGGGGTC-ACAGTTGAAGT
66 AAAATTTGGGGGTCGA-AATCGAAGT
* * * **
6517750 TTTGGAAAGTTTAGGGGTC-AAATATAATTTTTAGAAAGTT-TGGAGGTCAAAATATAATTTTTT
1 TTTAGAAAGTTTAGGGGTCAAAATATAATTTTCAAAAAGTTCAAG-GGTCAAAATATAA-TTTTT
*
6517813 TGAAAATTTGGGGGTCGAAATCGAAGT
64 AGAAAATTTGGGGGTCGAAATCGAAGT
* *
6517840 TTTAGAAAGTTCAGGGGTTAAAA
1 TTTAGAAAGTTTAGGGGTCAAAA
6517863 CAAAATTTCT
Statistics
Matches: 94, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
88 1 0.01
89 29 0.31
90 60 0.64
91 4 0.04
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.34
Consensus pattern (90 bp):
TTTAGAAAGTTTAGGGGTCAAAATATAATTTTCAAAAAGTTCAAGGGTCAAAATATAATTTTTAG
AAAATTTGGGGGTCGAAATCGAAGT
Found at i:6518234 original size:15 final size:16
Alignment explanation
Indices: 6518207--6518236 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6518197 AAATTAAAAA
6518207 TAAAAGAAAACAGAAT
1 TAAAAGAAAACAGAAT
6518223 TAAAAG-AAACAGAA
1 TAAAAGAAAACAGAA
6518237 AATAGAGGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.70, C:0.07, G:0.13, T:0.10
Consensus pattern (16 bp):
TAAAAGAAAACAGAAT
Found at i:6518238 original size:22 final size:22
Alignment explanation
Indices: 6518181--6518227 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
6518171 TGATTTGAAG
6518181 AAAAATAAAAG-AAACAAAATT
1 AAAAATAAAAGAAAACAAAATT
*
6518202 AAAAATAAAAGAAAACAGAATT
1 AAAAATAAAAGAAAACAAAATT
6518224 AAAA
1 AAAA
6518228 GAAACAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.77, C:0.04, G:0.06, T:0.13
Consensus pattern (22 bp):
AAAAATAAAAGAAAACAAAATT
Found at i:6518965 original size:19 final size:19
Alignment explanation
Indices: 6518941--6518983 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
6518931 AAACATAAGT
6518941 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
6518960 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
6518979 TAAAT
1 TAAAT
6518984 CTTAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:6521078 original size:37 final size:37
Alignment explanation
Indices: 6521037--6521112 Score: 98
Period size: 37 Copynumber: 2.1 Consensus size: 37
6521027 GTTGAGGCAG
* * * *
6521037 GATTGAATGGCTTTACTTTGCCCCACGGTTAGGGTAA
1 GATTGAATGGCTTCACTCTGCCCCACGATCAGGGTAA
* *
6521074 GATTGCATGGCTTCACTCTGCCCCATGATCAGGGTAA
1 GATTGAATGGCTTCACTCTGCCCCACGATCAGGGTAA
6521111 GA
1 GA
6521113 GATTGGACAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.29
Consensus pattern (37 bp):
GATTGAATGGCTTCACTCTGCCCCACGATCAGGGTAA
Found at i:6521345 original size:46 final size:46
Alignment explanation
Indices: 6521264--6521625 Score: 286
Period size: 46 Copynumber: 7.9 Consensus size: 46
6521254 TAAGATGGTA
* *
6521264 GCTTCAATCTACCACTCTTG-ATTAGG-GATAAAAGATTGGATTGTG
1 GCTTCAATCTGCCCCTCTTGAATTAGGAG-TAAAAGATTGGATTGTG
* * * **
6521309 GCTTTAATTTGCCCTTCTTGAATTAGGAGTAAAAGATTGGA-TGACA
1 GCTTCAATCTGCCCCTCTTGAATTAGGAGTAAAAGATTGGATTG-TG
* * * * * *
6521355 GTTTCAATCTGTCCCTCTTGACTTAGGAGTAAAAGACTAGATGGTG
1 GCTTCAATCTGCCCCTCTTGAATTAGGAGTAAAAGATTGGATTGTG
* * * * ** * *
6521401 GCTTCAATTTGTCCCTCTTGACTTAGGGGTAAAAGATTATATGGTA
1 GCTTCAATCTGCCCCTCTTGAATTAGGAGTAAAAGATTGGATTGTG
* * * * *
6521447 ACTTCAATCTTCCCCCCTTG-ATTAGGGGTAAAAGATTGGAATGTG
1 GCTTCAATCTGCCCCTCTTGAATTAGGAGTAAAAGATTGGATTGTG
* * * *
6521492 GCTTCAATCTGCCCCTCTT-TACTAGGGGTTAAAGATTGGA-TGATG
1 GCTTCAATCTGCCCCTCTTGAATTAGGAGTAAAAGATTGGATTG-TG
* * * *
6521537 GTTTCAATCTGCCCCTCTTGACTTAGGAGAAAAAGATTGGATGGTG
1 GCTTCAATCTGCCCCTCTTGAATTAGGAGTAAAAGATTGGATTGTG
* * * * * *
6521583 GCTTCAATCTGTCCCTATTTACTTTAGGGGTAAAAGGTTGGAT
1 GCTTCAATCTGCCCCTCTTGA-ATTAGGAGTAAAAGATTGGAT
6521626 GGTAGCTTTG
Statistics
Matches: 252, Mismatches: 56, Indels: 16
0.78 0.17 0.05
Matches are distributed among these distances:
44 2 0.01
45 90 0.36
46 140 0.56
47 20 0.08
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (46 bp):
GCTTCAATCTGCCCCTCTTGAATTAGGAGTAAAAGATTGGATTGTG
Found at i:6521563 original size:91 final size:91
Alignment explanation
Indices: 6521266--6521626 Score: 383
Period size: 91 Copynumber: 3.9 Consensus size: 91
6521256 AGATGGTAGC
* * * * * * *
6521266 TTCAATCTACCACTCTTGATTAGG-GATAAAAGATTGGATTGTGGCTTTAATTTGCCCTTCTTGA
1 TTCAATCTGCCCCTCTTGATTAGGAG-TAAAAGATTGGATGGTGGCTTCAATCTGCCCCTCTTTA
* * **
6521330 ATTAGGAGTAAAAGATTGGATGACAGT
65 CTTAGGGGTAAAAGATTGGATGATGGT
* * * * * *
6521357 TTCAATCTGTCCCTCTTGACTTAGGAGTAAAAGACTAGATGGTGGCTTCAATTTGTCCCTCTTGA
1 TTCAATCTGCCCCTCTTGA-TTAGGAGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCTCTTTA
6521422 CTTAGGGGTAAAAGATT--AT-ATGGT
65 CTTAGGGGTAAAAGATTGGATGATGGT
* * *
6521446 AACTTCAATCTTCCCCCCTTGATTAGGGGTAAAAGATTGGAAT-GTGGCTTCAATCTGCCCCTCT
1 ---TTCAATCTGCCCCTCTTGATTAGGAGTAAAAGATTGG-ATGGTGGCTTCAATCTGCCCCTCT
*
6521510 TTAC-TAGGGGTTAAAGATTGGATGATGGT
62 TTACTTAGGGGTAAAAGATTGGATGATGGT
* * *
6521539 TTCAATCTGCCCCTCTTGACTTAGGAGAAAAAGATTGGATGGTGGCTTCAATCTGTCCCTATTTA
1 TTCAATCTGCCCCTCTTGA-TTAGGAGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCTCTTTA
*
6521604 CTTTAGGGGTAAAAGGTTGGATG
65 C-TTAGGGGTAAAAGATTGGATG
6521627 GTAGCTTTGC
Statistics
Matches: 226, Mismatches: 31, Indels: 24
0.80 0.11 0.09
Matches are distributed among these distances:
89 3 0.01
90 35 0.15
91 92 0.41
92 72 0.32
93 24 0.11
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (91 bp):
TTCAATCTGCCCCTCTTGATTAGGAGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCTCTTTAC
TTAGGGGTAAAAGATTGGATGATGGT
Found at i:6522186 original size:99 final size:99
Alignment explanation
Indices: 6522083--6522684 Score: 507
Period size: 99 Copynumber: 6.1 Consensus size: 99
6522073 CGGTCTGAAC
* * * * *
6522083 CTTTCCCTTCACATCGTCGAAGGTACCGGGTTTGCCGTTGCGGTTTCAACCTTTCCCTTCATATC
1 CTTTCCCATCACATCTTCTAAGGTACCGGGTTCGCCGTTGCGGCTTCAACCTTTCCCTTCATATC
6522148 TTCATGGTACCAGATTCGTCGTTGCGGCCTCAAT
66 TTCATGGTACCAGATTCGTCGTTGCGGCCTCAAT
* ** * * **
6522182 CTTTCCCATCACATC-TCTTAAGGTACCAGGTTAACTGTTGCGGCCTTC-ACCTTTCTCTTTGTA
1 CTTTCCCATCACATCTTC-TAAGGTACCGGGTTCGCCGTTGCGG-CTTCAACCTTTCCCTTCATA
* * *
6522245 TCTTCATGGTATCGGATTCG-CTGTTGCAGCCTCAAT
64 TCTTCATGGTACCAGATTCGTC-GTTGCGGCCTCAAT
*
6522281 CCTTT-CCATCACATCTTCTAAGGTACCGGGTTCGCCGTTACGGACTTC-ACCTTTCCCTTCATA
1 -CTTTCCCATCACATCTTCTAAGGTACCGGGTTCGCCGTTGCGG-CTTCAACCTTTCCCTTCATA
* * *
6522344 TCTTCATGGTACTAGATTCATCGTTGCGGCCTTAAT
64 TCTTCATGGTACCAGATTCGTCGTTGCGGCCTCAAT
* * * * * *
6522380 CCTTCCCATCACATCTTATAAGGTACCGAGTTCGTCGTTGCAG-TCACAACCTTTCCCTTCATAT
1 CTTTCCCATCACATCTTCTAAGGTACCGGGTTCGCCGTTGCGGCT-TCAACCTTTCCCTTCATAT
* *
6522444 CTTCATGGTACCGGATTCGTCGTTGCAGCCTCAAT
65 CTTCATGGTACCAGATTCGTCGTTGCGGCCTCAAT
** * * * * ** * * * *
6522479 CCATGCCATCACATCTTTTAAGGTATCGGGTTTGTTGTTGTGACCTCAACCTTTCCATTCATATC
1 CTTTCCCATCACATCTTCTAAGGTACCGGGTTCGCCGTTGCGGCTTCAACCTTTCCCTTCATATC
* * * * * *
6522544 TTCTAAGGTACCAGGTTCGCCATTGCGACCTCAAC
66 TTC-ATGGTACCAGATTCGTCGTTGCGGCCTCAAT
* * * ** * * * * * * * *
6522579 CTTTCCCTTCATATCTTC-ATGGTATTGGATTCACCATTACGGCCTCAATCTTTCCCATCACATC
1 CTTTCCCATCACATCTTCTAAGGTACCGGGTTCGCCGTTGCGGCTTCAACCTTTCCCTTCATATC
* ** * * *
6522643 TTCTAAGGTACTGGGTTCGTCGTTGCGGTCTCAAC
66 TTC-ATGGTACCAGATTCGTCGTTGCGGCCTCAAT
6522678 CTTTCCC
1 CTTTCCC
6522685 TTAATATCTT
Statistics
Matches: 404, Mismatches: 88, Indels: 22
0.79 0.17 0.04
Matches are distributed among these distances:
97 1 0.00
98 7 0.02
99 351 0.87
100 45 0.11
ACGTcount: A:0.18, C:0.30, G:0.17, T:0.35
Consensus pattern (99 bp):
CTTTCCCATCACATCTTCTAAGGTACCGGGTTCGCCGTTGCGGCTTCAACCTTTCCCTTCATATC
TTCATGGTACCAGATTCGTCGTTGCGGCCTCAAT
Found at i:6522188 original size:149 final size:149
Alignment explanation
Indices: 6521970--6522695 Score: 576
Period size: 149 Copynumber: 4.9 Consensus size: 149
6521960 AATATTCACA
* * * * ** *
6521970 GTTGCGGCTTCAACCTTTCCC-TCTATATCTTCATCGTATCGAATTTACCGTTGCAGCCTCAATC
1 GTTGCGGCCTCAACCTTTCCCTTC-ATATCTTCATGGTACCGGATTCGCCGTTGCGGCCTCAATC
* * * * * * *
6522034 CTTCCCATCATATTTTCTAAGGTACTGGGTTCGCCGTTACGGTCTGAACCTTTCCCTTCACATCG
65 TTTCCCATCACATTTTCTAAGGTACTGGGTTCGTCGTTGCGGCCTCAACCTTTCCCTTCACATCT
* *
6522099 TCGAAGGTACCGGGTTTGCC
130 TCTAAGGTACCGGGTTCGCC
** * *
6522119 GTTGCGGTTTCAACCTTTCCCTTCATATCTTCATGGTACCAGATTCGTCGTTGCGGCCTCAATCT
1 GTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGCCGTTGCGGCCTCAATCT
* ** * ***
6522184 TTCCCATCACA-TCTCTTAAGGTACCAGGTTAAC-T-GTTGCGGCCTTC-ACCTTTCTCTTTGTA
66 TTCCCATCACATTTTC-TAAGGTACTGGGTT--CGTCGTTGCGGCC-TCAACCTTTCCCTTCACA
* * * *
6522245 TCTTC-ATGGTATCGGATTCGCT
127 TCTTCTAAGGTACCGGGTTCGCC
* * * * * * *
6522267 GTTGCAGCCTCAATCCTTT-CCATCACATCTTCTAAGGTACCGGGTTCGCCGTTACGGACTTC-A
1 GTTGCGGCCTCAA-CCTTTCCCTTCATATCTTC-ATGGTACCGGATTCGCCGTTGCGG-CCTCAA
* * * * * * * * * *
6522330 CCTTTCCCTTCATATCTTC-ATGGTACTAGATTCATCGTTGCGGCCTTAATCC-TTCCCATCACA
63 TCTTTCCCATCACATTTTCTAAGGTACTGGGTTCGTCGTTGCGGCCTCAA-CCTTTCCCTTCACA
* * *
6522393 TCTTATAAGGTACCGAGTTCGTC
127 TCTTCTAAGGTACCGGGTTCGCC
* * * * * *
6522416 GTTGCAGTCACAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGTCGTTGCAGCCTCAATCC
1 GTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGCCGTTGCGGCCTCAATCT
* * * * * * * *
6522481 ATGCCATCACATCTTT-TAAGGTA-TCGGGTTTGTTGTTGTGACCTCAACCTTTCCATTCATATC
66 TTCCCATCACAT-TTTCTAAGGTACT-GGGTTCGTCGTTGCGGCCTCAACCTTTCCCTTCACATC
*
6522544 TTCTAAGGTACCAGGTTCGCC
129 TTCTAAGGTACCGGGTTCGCC
* * ** * * *
6522565 ATTGCGACCTCAACCTTTCCCTTCATATCTTCATGGTATTGGATTCACCATTACGGCCTCAATCT
1 GTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGCCGTTGCGGCCTCAATCT
* * * *
6522630 TTCCCATCACATCTTCTAAGGTACTGGGTTCGTCGTTGCGGTCTCAACCTTTCCCTTAATATCTT
66 TTCCCATCACATTTTCTAAGGTACTGGGTTCGTCGTTGCGGCCTCAACCTTTCCCTTCACATCTT
6522695 C
131 C
6522696 ATGTTCCCTC
Statistics
Matches: 439, Mismatches: 116, Indels: 44
0.73 0.19 0.07
Matches are distributed among these distances:
146 1 0.00
147 5 0.01
148 105 0.24
149 318 0.72
150 9 0.02
151 1 0.00
ACGTcount: A:0.18, C:0.30, G:0.17, T:0.35
Consensus pattern (149 bp):
GTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGCCGTTGCGGCCTCAATCT
TTCCCATCACATTTTCTAAGGTACTGGGTTCGTCGTTGCGGCCTCAACCTTTCCCTTCACATCTT
CTAAGGTACCGGGTTCGCC
Found at i:6522224 original size:248 final size:248
Alignment explanation
Indices: 6521879--6522341 Score: 617
Period size: 248 Copynumber: 1.9 Consensus size: 248
6521869 TCGTTGATGC
* ** *
6521879 TTCAACCTTTCTCTCCACTTCTTCATGGTACAAGATTCGTCGTTGCGGTTTTAATCTTTCCTCAT
1 TTCAACCTTTCCCTCCACTTCTTCATGGTACAAGATTCGTCGTTGCGGCCTCAATCTTTCCTCAT
** * * *
6521944 CATGTCTCTAATGTACAATATTCACAGTTGCGG-CTTCAACCTTTCCCTCTATATCTTCATCGTA
66 CACATCTCTAAGGTACAAGATTAACAGTTGCGGCCTTC-ACCTTTCCCTCTATATCTTCATCGTA
* * * *
6522008 TCGAATTTACCGTTGCAGCCTCAATCCTTCCCATCATATTTTCTAAGGTACTGGGTTCGCCGTTA
130 TCGAATTCACCGTTGCAGCCTCAATCCTTCCCATCACATCTTCTAAGGTACCGGGTTCGCCGTTA
*
6522073 CGGTCTGAACCTTTCCCTTCACATCGTCGAAGGTACCGGGTTTGCCGTTGCGGT
195 CGGACTGAACCTTTCCCTTCACATCGTCGAAGGTACCGGGTTTGCCGTTGCGGT
* *
6522127 TTCAACCTTTCCCTTCA-TATCTTCATGGTACCAGATTCGTCGTTGCGGCCTCAATCTTTCC-CA
1 TTCAACCTTTCCCTCCACT-TCTTCATGGTACAAGATTCGTCGTTGCGGCCTCAATCTTTCCTCA
* * * * * * *
6522190 TCACATCTCTTAAGGTACCAGGTTAACTGTTGCGGCCTTCACCTTTCTCTTTGTATCTTCATGGT
65 TCACATCTC-TAAGGTACAAGATTAACAGTTGCGGCCTTCACCTTTCCCTCTATATCTTCATCGT
* * * *
6522255 ATCGGATTCGCTGTTGCAGCCTCAATCCTTTCCATCACATCTTCTAAGGTACCGGGTTCGCCGTT
129 ATCGAATTCACCGTTGCAGCCTCAATCCTTCCCATCACATCTTCTAAGGTACCGGGTTCGCCGTT
**
6522320 ACGGACTTCACCTTTCCCTTCA
194 ACGGACTGAACCTTTCCCTTCA
6522342 TATCTTCATG
Statistics
Matches: 183, Mismatches: 29, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
247 10 0.05
248 169 0.92
249 4 0.02
ACGTcount: A:0.18, C:0.30, G:0.16, T:0.36
Consensus pattern (248 bp):
TTCAACCTTTCCCTCCACTTCTTCATGGTACAAGATTCGTCGTTGCGGCCTCAATCTTTCCTCAT
CACATCTCTAAGGTACAAGATTAACAGTTGCGGCCTTCACCTTTCCCTCTATATCTTCATCGTAT
CGAATTCACCGTTGCAGCCTCAATCCTTCCCATCACATCTTCTAAGGTACCGGGTTCGCCGTTAC
GGACTGAACCTTTCCCTTCACATCGTCGAAGGTACCGGGTTTGCCGTTGCGGT
Found at i:6522343 original size:198 final size:198
Alignment explanation
Indices: 6522082--6522595 Score: 578
Period size: 198 Copynumber: 2.6 Consensus size: 198
6522072 ACGGTCTGAA
* * * *
6522082 CCTTTCCCTTCACATCGTCGAAGGTACCGGGTTTGCCGTTGCGG-TTTCAACCTTTCCCTTCATA
1 CCTTT-CCATCACATCTTCTAAGGTACCGGGTTTGCCGTT-CGGACTTCAACCTTTCCCTTCATA
6522146 TCTTCATGGTACCAGATTCGTCGTTGCGGCCTCAATCTTTCCCATCACATCTCT-TAAGGTACC-
64 TCTTCATGGTACCAGATTCGTCGTTGCGGCCTCAATCTTTCCCATCACATCT-TATAAGGTACCG
* * * ** *
6522209 AGGTTAAC-T-GTTGCGGCCTTC-ACCTTTCTCTTTGTATCTTCATGGTATCGGATTCG-CTGTT
128 A-GTT--CGTCGTTGCAGCC-ACAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGTC-GTT
6522270 GCAGCCTCAAT
188 GCAGCCTCAAT
*
6522281 CCTTTCCATCACATCTTCTAAGGTACCGGGTTCGCCGTTACGGACTTC-ACCTTTCCCTTCATAT
1 CCTTTCCATCACATCTTCTAAGGTACCGGGTTTGCCGTT-CGGACTTCAACCTTTCCCTTCATAT
* * * *
6522345 CTTCATGGTACTAGATTCATCGTTGCGGCCTTAATCCTTCCCATCACATCTTATAAGGTACCGAG
65 CTTCATGGTACCAGATTCGTCGTTGCGGCCTCAATCTTTCCCATCACATCTTATAAGGTACCGAG
*
6522410 TTCGTCGTTGCAGTCACAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGTCGTTGCAGCCT
130 TTCGTCGTTGCAGCCACAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGTCGTTGCAGCCT
6522475 CAAT
195 CAAT
* * * * ** * *
6522479 CCATGCCATCACATCTTTTAAGGTATCGGGTTTGTTGTT-GTGACCTCAACCTTTCCATTCATAT
1 CCTTTCCATCACATCTTCTAAGGTACCGGGTTTGCCGTTCG-GACTTCAACCTTTCCCTTCATAT
* * * * * * * *
6522543 CTTCTAAGGTACCAGGTTCGCCATTGCGACCTCAACCTTTCCCTTCATATCTT
65 CTTC-ATGGTACCAGATTCGTCGTTGCGGCCTCAATCTTTCCCATCACATCTT
6522596 CATGGTATTG
Statistics
Matches: 267, Mismatches: 38, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
196 2 0.01
197 8 0.03
198 211 0.79
199 46 0.17
ACGTcount: A:0.18, C:0.30, G:0.17, T:0.35
Consensus pattern (198 bp):
CCTTTCCATCACATCTTCTAAGGTACCGGGTTTGCCGTTCGGACTTCAACCTTTCCCTTCATATC
TTCATGGTACCAGATTCGTCGTTGCGGCCTCAATCTTTCCCATCACATCTTATAAGGTACCGAGT
TCGTCGTTGCAGCCACAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGTCGTTGCAGCCTC
AAT
Found at i:6522416 original size:248 final size:247
Alignment explanation
Indices: 6521970--6522684 Score: 675
Period size: 248 Copynumber: 2.9 Consensus size: 247
6521960 AATATTCACA
* * * * *
6521970 GTTGCGG-CTTCAACCTTTCCCTCTATATCTTCATCGTATCGAATTTACCGTTGCAGCCTCAATC
1 GTTGCGGCCTTCAACCTTT-CCTTTATATCTTCATGGTATCGGATTTGCTGTTGCAGCCTCAATC
* * * * ** * *
6522034 CTTCCCATCATATTTTCTAAGGTACTGGGTTCGCCGTTACGGTCTGAACCTTTCCCTTCACATCG
65 CTTTCCATCATATCTTCTAAGGTACCGGGTTCGCCGTTACGGACTTCACCTTTCCCTTCATATCT
* * * ** * * *
6522099 TCGAAGGTACCGGGTTTGCCGTTGCGG-TTTCAA-CCTTTCCCTTCATATCTTCAT--GGTACC-
130 TC-ATGGTACTGGATTCACCGTTGCGGCCTT-AATCC-TTCCCATCACATCTT-ATAAGGTACCG
* * *
6522159 AGATTCGTCGTTGCGGCCTCAATCTTTCCCATCACATCTCTTAAGGTACCAGG-TTAAC-T-
191 AG-TTCGTCGTTGCGGTCTCAACCTTTCCCATCACATCT-TCAAGGTACC-GGATT--CGTC
* *
6522218 GTTGCGGCCTTC-ACCTTTCTCTTTGTATCTTCATGGTATCGGATTCGCTGTTGCAGCCTCAATC
1 GTTGCGGCCTTCAACCTTTC-CTTTATATCTTCATGGTATCGGATTTGCTGTTGCAGCCTCAATC
*
6522282 CTTTCCATCACATCTTCTAAGGTACCGGGTTCGCCGTTACGGACTTCACCTTTCCCTTCATATCT
65 CTTTCCATCATATCTTCTAAGGTACCGGGTTCGCCGTTACGGACTTCACCTTTCCCTTCATATCT
* *
6522347 TCATGGTACTAGATTCATCGTTGCGGCCTTAATCCTTCCCATCACATCTTATAAGGTACCGAGTT
130 TCATGGTACTGGATTCACCGTTGCGGCCTTAATCCTTCCCATCACATCTTATAAGGTACCGAGTT
* * * * *
6522412 CGTCGTTGCAGTCACAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGTC
195 CGTCGTTGCGGTCTCAACCTTTCCCATCACATCTTCAAGGTACCGGATTCGTC
* * * * * * * * * * *
6522465 GTTGCAGCC-TCAATCCATGCCATCACATCTTTTAAGGTATCGGGTTTGTTGTTG-TGACCTCAA
1 GTTGCGGCCTTCAA-CCTTTCCTTTATATC-TTCATGGTATCGGATTTGCTGTTGCAG-CCTCAA
* * * *
6522528 -CCTTTCCATTCATATCTTCTAAGGTACCAGGTTCGCCATTGC-GACCTCAACCTTTCCCTTCAT
63 TCCTTTCCA-TCATATCTTCTAAGGTACCGGGTTCGCCGTTACGGACTTC-ACCTTTCCCTTCAT
* * * * * * *
6522591 ATCTTCATGGTATTGGATTCACCATTACGGCCTCAATCTTTCCCATCACATCTTCTAAGGTACTG
126 ATCTTCATGGTACTGGATTCACCGTTGCGGCCTTAATCCTTCCCATCACATCTTATAAGGTACCG
*
6522656 GGTTCGTCGTTGCGGTCTCAACCTTTCCC
191 AGTTCGTCGTTGCGGTCTCAACCTTTCCC
6522685 TTAATATCTT
Statistics
Matches: 387, Mismatches: 64, Indels: 32
0.80 0.13 0.07
Matches are distributed among these distances:
245 1 0.00
246 7 0.02
247 71 0.18
248 302 0.78
249 6 0.02
ACGTcount: A:0.18, C:0.30, G:0.17, T:0.35
Consensus pattern (247 bp):
GTTGCGGCCTTCAACCTTTCCTTTATATCTTCATGGTATCGGATTTGCTGTTGCAGCCTCAATCC
TTTCCATCATATCTTCTAAGGTACCGGGTTCGCCGTTACGGACTTCACCTTTCCCTTCATATCTT
CATGGTACTGGATTCACCGTTGCGGCCTTAATCCTTCCCATCACATCTTATAAGGTACCGAGTTC
GTCGTTGCGGTCTCAACCTTTCCCATCACATCTTCAAGGTACCGGATTCGTC
Found at i:6523541 original size:15 final size:15
Alignment explanation
Indices: 6523521--6523584 Score: 67
Period size: 15 Copynumber: 4.0 Consensus size: 15
6523511 CCTCGAGACC
6523521 TTCTTTTCTTTTTTT
1 TTCTTTTCTTTTTTT
6523536 TTCTTTT-TTCTTTTT
1 TTCTTTTCTT-TTTTT
*
6523551 TTCTTTCTTTTTTCTTT
1 TTCTTT-TCTTTT-TTT
6523568 TTCTCTTTCCTTTTTTT
1 TTCT-TTT-CTTTTTTT
6523585 ATTATTTTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
14 2 0.05
15 18 0.43
16 3 0.07
17 13 0.31
18 6 0.14
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTCTTTTCTTTTTTT
Found at i:6523552 original size:25 final size:27
Alignment explanation
Indices: 6523524--6523575 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 27
6523514 CGAGACCTTC
6523524 TTTTCTTT-TTTTTTCTTTTT-TCTTT
1 TTTTCTTTCTTTTTTCTTTTTCTCTTT
6523549 TTTTCTTTCTTTTTTCTTTTTCTCTTT
1 TTTTCTTTCTTTTTTCTTTTTCTCTTT
6523576 CCTTTTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 8 0.32
26 12 0.48
27 5 0.20
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (27 bp):
TTTTCTTTCTTTTTTCTTTTTCTCTTT
Found at i:6523557 original size:19 final size:19
Alignment explanation
Indices: 6523524--6523583 Score: 88
Period size: 19 Copynumber: 3.2 Consensus size: 19
6523514 CGAGACCTTC
6523524 TTTTC-TTTTTT-TTTCTT
1 TTTTCTTTTTTTCTTTCTT
6523541 TTTTCTTTTTTTCTTTCTT
1 TTTTCTTTTTTTCTTTCTT
*
6523560 TTTTCTTTTTCTCTTTCCTT
1 TTTTCTTTTTTTCTTT-CTT
6523580 TTTT
1 TTTT
6523584 TATTATTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
17 5 0.13
18 6 0.15
19 21 0.54
20 7 0.18
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTTCTTTTTTTCTTTCTT
Found at i:6523593 original size:25 final size:24
Alignment explanation
Indices: 6523520--6523594 Score: 80
Period size: 25 Copynumber: 3.0 Consensus size: 24
6523510 ACCTCGAGAC
6523520 CTTCTTTTCTTTTTTTTTCTTTTTT
1 CTTCTTTTCTTTTTTTTT-TTTTTT
* *
6523545 CTTTTTTTCTTTCTTTTTTCTTTTT
1 CTTCTTTTCTTT-TTTTTTTTTTTT
*
6523570 C-TCTTTCCTTTTTTTATTATTTTTT
1 CTTCTTTTCTTTTTTT-TT-TTTTTT
6523595 TGGGGTGAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
23 4 0.10
24 10 0.24
25 22 0.52
26 6 0.14
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (24 bp):
CTTCTTTTCTTTTTTTTTTTTTTT
Found at i:6524154 original size:81 final size:81
Alignment explanation
Indices: 6524019--6524185 Score: 280
Period size: 81 Copynumber: 2.1 Consensus size: 81
6524009 GCCAACAAAA
* *
6524019 TCTTGATTGATGTTCAGTAAGCGTAGAGAGCAAATGATAACTTCTCATGCCAATCTTTGTAGGTC
1 TCTTGATTGATGTTCAGTAAGCGTAGAGAGCAAATGATAACTTATCATGCCAATCTTTGTAGGCC
6524084 TCAATCTTCTTGATAT
66 TCAATCTTCTTGATAT
* * *
6524100 TCTTGATTTATTTTCAGTAAGCGTAGAGAGCAAATGATAACTTATCATGTCAATCTTTGTAGGCC
1 TCTTGATTGATGTTCAGTAAGCGTAGAGAGCAAATGATAACTTATCATGCCAATCTTTGTAGGCC
*
6524165 TCGATCTTCTTGATAT
66 TCAATCTTCTTGATAT
6524181 TCTTG
1 TCTTG
6524186 TTAACTGCTT
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (81 bp):
TCTTGATTGATGTTCAGTAAGCGTAGAGAGCAAATGATAACTTATCATGCCAATCTTTGTAGGCC
TCAATCTTCTTGATAT
Found at i:6529125 original size:29 final size:30
Alignment explanation
Indices: 6529092--6529160 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
6529082 GAAAAAAAAT
*
6529092 AGGGTTAAAAAGCAA-ATTTGGAAAGTTT-
1 AGGGTTAAAAAGCAATATTTAGAAAGTTTG
* * *
6529120 AGGGGTCAAAATGCAATTTTTAGAAAGTTTG
1 A-GGGTTAAAAAGCAATATTTAGAAAGTTTG
6529151 AGGGTTAAAA
1 AGGGTTAAAA
6529161 TATGATTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
28 1 0.03
29 12 0.36
30 19 0.58
31 1 0.03
ACGTcount: A:0.41, C:0.04, G:0.26, T:0.29
Consensus pattern (30 bp):
AGGGTTAAAAAGCAATATTTAGAAAGTTTG
Found at i:6529184 original size:29 final size:30
Alignment explanation
Indices: 6529112--6529279 Score: 157
Period size: 30 Copynumber: 5.7 Consensus size: 30
6529102 AGCAAATTTG
* **
6529112 GAAAGTTT-AGGGGTCAAAATGCAATTTTTA
1 GAAAGTTTGA-GGGTTAAAATATAATTTTTA
*
6529142 GAAAGTTTGAGGGTTAAAATATGATTTTTA
1 GAAAGTTTGAGGGTTAAAATATAATTTTTA
* * * * *
6529172 GAAA-TTTGGGGGTCATAATCA-AAGTTTTG
1 GAAAGTTTGAGGGTTAAAAT-ATAATTTTTA
*
6529201 GAAAGTTT-AGGGTTAAAATATAATTGTTA
1 GAAAGTTTGAGGGTTAAAATATAATTTTTA
*
6529230 GAAAGTTTG-GAGGTTAAAATATAATTTTTG
1 GAAAGTTTGAG-GGTTAAAATATAATTTTTA
* *
6529260 GAAAATTTGAGGGTCAAAAT
1 GAAAGTTTGAGGGTTAAAAT
6529280 CAAAGTTCTA
Statistics
Matches: 111, Mismatches: 20, Indels: 14
0.77 0.14 0.10
Matches are distributed among these distances:
28 1 0.01
29 43 0.39
30 65 0.59
31 2 0.02
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.36
Consensus pattern (30 bp):
GAAAGTTTGAGGGTTAAAATATAATTTTTA
Found at i:6529184 original size:59 final size:59
Alignment explanation
Indices: 6529112--6529279 Score: 196
Period size: 59 Copynumber: 2.8 Consensus size: 59
6529102 AGCAAATTTG
* * * *
6529112 GAAAGTTTAGGGGTCAAAATGCAATTTTTAGAAAGTTTGAGGGTTAAAATATGATTTTTA
1 GAAAGTTTGGGGGTCAAAAT-CAATTTTTGGAAAGTTTGAGGGTTAAAATATAATTGTTA
* *
6529172 GAAA-TTTGGGGGTCATAATCAAAGTTTTGGAAAGTTT-AGGGTTAAAATATAATTGTTA
1 GAAAGTTTGGGGGTCAAAATC-AATTTTTGGAAAGTTTGAGGGTTAAAATATAATTGTTA
* * * * *
6529230 GAAAGTTTGGAGGTTAAAATATAATTTTTGGAAAATTTGAGGGTCAAAAT
1 GAAAGTTTGGGGGTCAAAAT-CAATTTTTGGAAAGTTTGAGGGTTAAAAT
6529280 CAAAGTTCTA
Statistics
Matches: 91, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
58 24 0.26
59 53 0.58
60 14 0.15
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.36
Consensus pattern (59 bp):
GAAAGTTTGGGGGTCAAAATCAATTTTTGGAAAGTTTGAGGGTTAAAATATAATTGTTA
Found at i:6529201 original size:89 final size:89
Alignment explanation
Indices: 6529108--6529286 Score: 254
Period size: 88 Copynumber: 2.0 Consensus size: 89
6529098 AAAAAGCAAA
* * *
6529108 TTTGGAAAGTTTAGGGGTCAAAATGCAATTTTTAGAAAGTTT-GAGGGTTAAAATATGATTTTTA
1 TTTGGAAAGTTTA-GGGTCAAAATACAATTGTTAGAAAGTTTGGA-GGTTAAAATATAATTTTTA
* *
6529172 G-AAATTTGGGGGTCATAATCAAAGT
64 GAAAATTTGAGGGTCAAAATCAAAGT
* * *
6529197 TTTGGAAAGTTTAGGGTTAAAATATAATTGTTAGAAAGTTTGGAGGTTAAAATATAATTTTTGGA
1 TTTGGAAAGTTTAGGGTCAAAATACAATTGTTAGAAAGTTTGGAGGTTAAAATATAATTTTTAGA
6529262 AAATTTGAGGGTCAAAATCAAAGT
66 AAATTTGAGGGTCAAAATCAAAGT
6529286 T
1 T
6529287 CTAAAAAGTT
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
88 42 0.52
89 38 0.47
ACGTcount: A:0.37, C:0.03, G:0.23, T:0.36
Consensus pattern (89 bp):
TTTGGAAAGTTTAGGGTCAAAATACAATTGTTAGAAAGTTTGGAGGTTAAAATATAATTTTTAGA
AAATTTGAGGGTCAAAATCAAAGT
Found at i:6532000 original size:100 final size:101
Alignment explanation
Indices: 6531827--6532036 Score: 395
Period size: 100 Copynumber: 2.1 Consensus size: 101
6531817 ATAAGAGCAT
*
6531827 TTTAAGCACTTTACCTTATTTTATGGTATAAAATTAGATGGATATTACATATTTAAAATAAAATA
1 TTTAAGCACTTTACCTTATCTTATGGTATAAAATTAGATGGATATTACATATTTAAAATAAAATA
6531892 TTTAGAACGT-ATATATAATATTTGAAAACTTCTTA
66 TTTAGAACGTAATATATAATATTTGAAAACTTCTTA
6531927 TTTAAGCACTTTACCTTATCTTATGGTATAAAATTAGATGGATATTACATATTTAAAATAAAATA
1 TTTAAGCACTTTACCTTATCTTATGGTATAAAATTAGATGGATATTACATATTTAAAATAAAATA
*
6531992 TTTAGAACGTAATATATAATATTTGAAAACTTTTTA
66 TTTAGAACGTAATATATAATATTTGAAAACTTCTTA
6532028 TTTAAGCAC
1 TTTAAGCAC
6532037 ATTTTGAAAG
Statistics
Matches: 107, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
100 74 0.69
101 33 0.31
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (101 bp):
TTTAAGCACTTTACCTTATCTTATGGTATAAAATTAGATGGATATTACATATTTAAAATAAAATA
TTTAGAACGTAATATATAATATTTGAAAACTTCTTA
Found at i:6533602 original size:46 final size:46
Alignment explanation
Indices: 6533535--6533625 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 46
6533525 TAGTTTTTCT
*
6533535 GGTGAAGGATGCAACTGTTCTTAAATGCTAGCAAGAAGAGTAAGGG
1 GGTGAAGGATACAACTGTTCTTAAATGCTAGCAAGAAGAGTAAGGG
*
6533581 GGTGAAGGATACATCTGTTCTTAAATGCTAGCAAGAAGAGTAAGG
1 GGTGAAGGATACAACTGTTCTTAAATGCTAGCAAGAAGAGTAAGG
6533626 ATACATCTGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.35, C:0.11, G:0.31, T:0.23
Consensus pattern (46 bp):
GGTGAAGGATACAACTGTTCTTAAATGCTAGCAAGAAGAGTAAGGG
Found at i:6534224 original size:70 final size:70
Alignment explanation
Indices: 6534090--6534233 Score: 236
Period size: 70 Copynumber: 2.1 Consensus size: 70
6534080 ATCTTACATA
* * *
6534090 AATACTTGTCAAACACATGAACCAATTTAAGTAACTTATTAGTCCAAGATGAAAGTGGCAACTAA
1 AATACTTGTCAAACACATGAACCAATTTAACTAACTCATTAATCCAAGATGAAAGTGGCAACTAA
6534155 TGTTG
66 TGTTG
*
6534160 AATA-TTGTCAAACACATGAACCAATTTGACTAACGTCATTAATCCAAGATGAAAGTGGCAACTA
1 AATACTTGTCAAACACATGAACCAATTTAACTAAC-TCATTAATCCAAGATGAAAGTGGCAACTA
6534224 ATGTTG
65 ATGTTG
6534230 AATA
1 AATA
6534234 AAAAGCCCAA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
69 28 0.41
70 41 0.59
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (70 bp):
AATACTTGTCAAACACATGAACCAATTTAACTAACTCATTAATCCAAGATGAAAGTGGCAACTAA
TGTTG
Found at i:6534441 original size:46 final size:47
Alignment explanation
Indices: 6534389--6534478 Score: 155
Period size: 47 Copynumber: 1.9 Consensus size: 47
6534379 TTTATGTTTA
* *
6534389 AAAGATGTG-TTTTTGGGTAAATTTTAAAAGATGGTTTTTATTTATC
1 AAAGATGTGTTTTTTGGGTAAATTTTAAAAGAAGATTTTTATTTATC
6534435 AAAGATGTGTTTTTTGGGTAAATTTTAAAAGAAGATTTTTATTT
1 AAAGATGTGTTTTTTGGGTAAATTTTAAAAGAAGATTTTTATTT
6534479 CTCTTTCCTA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
46 9 0.22
47 32 0.78
ACGTcount: A:0.32, C:0.01, G:0.19, T:0.48
Consensus pattern (47 bp):
AAAGATGTGTTTTTTGGGTAAATTTTAAAAGAAGATTTTTATTTATC
Found at i:6535608 original size:45 final size:45
Alignment explanation
Indices: 6535510--6535915 Score: 334
Period size: 45 Copynumber: 9.0 Consensus size: 45
6535500 AAACTGGAGG
* *
6535510 TGGTGGGGGTGGAGACTTATACTTGTAAGGG-TGCTTGGGTGGGGATGGA
1 TGGTGGTGGTGGAGACTTGTACTTGT-AGGGATGCTTGGGT--GG-T-GA
* * *
6535559 GGTGGTGGTGGAGGAGACTTGTACTCGTAGGGATGCTTGGGTGGTGG
1 --TGGTGGTGGTGGAGACTTGTACTTGTAGGGATGCTTGGGTGGTGA
* * * *
6535606 TGGTTGTGGTGGAGACTTATACTTGTA---A-ACTAGAGGTGGTGA
1 TGGTGGTGGTGGAGACTTGTACTTGTAGGGATGCTTG-GGTGGTGA
*
6535648 -----G-GGTGGAGAATTGTACTTGTAAGGG-TGCTTGGGTGGTGA
1 TGGTGGTGGTGGAGACTTGTACTTGT-AGGGATGCTTGGGTGGTGA
* * ** *
6535687 TGGTGGGGGTGAAGACTTGTACTCATAAGGG-TGTTTGGGTGGTGA
1 TGGTGGTGGTGGAGACTTGTACTTGT-AGGGATGCTTGGGTGGTGA
* * * * *
6535732 TGGTGGGGGTGGGGACTTGTACTCGTAGGGGTGTTTGGGTGGTGA
1 TGGTGGTGGTGGAGACTTGTACTTGTAGGGATGCTTGGGTGGTGA
* * *
6535777 TGGTGGTGGAGGCGGGGACTTGTACTTATAGGGATGCTTGGGTGGTGA
1 TGGTGGT---GGTGGAGACTTGTACTTGTAGGGATGCTTGGGTGGTGA
* * * * *
6535825 TGGTGGGGGTGGGGATTTGTACTTGTAGGGGTGTTTGGGTGGTGA
1 TGGTGGTGGTGGAGACTTGTACTTGTAGGGATGCTTGGGTGGTGA
* *
6535870 TGCTGGTGGTGGGGACTTGTACTTGTAGGGATGCTTGGGTGGTGA
1 TGGTGGTGGTGGAGACTTGTACTTGTAGGGATGCTTGGGTGGTGA
6535915 T
1 T
6535916 AGTGAAGGAG
Statistics
Matches: 297, Mismatches: 41, Indels: 40
0.79 0.11 0.11
Matches are distributed among these distances:
36 17 0.06
37 2 0.01
39 8 0.03
40 3 0.01
41 3 0.01
42 8 0.03
44 5 0.02
45 173 0.58
47 1 0.00
48 40 0.13
49 2 0.01
50 4 0.01
51 31 0.10
ACGTcount: A:0.15, C:0.07, G:0.48, T:0.31
Consensus pattern (45 bp):
TGGTGGTGGTGGAGACTTGTACTTGTAGGGATGCTTGGGTGGTGA
Found at i:6535617 original size:51 final size:51
Alignment explanation
Indices: 6535504--6535602 Score: 146
Period size: 51 Copynumber: 1.9 Consensus size: 51
6535494 ACTTGTAAAC
* *
6535504 TGGAGGTGGTGGGGGTGGAGACTTATACTTGTAAGGGTGCTTGGGTGGGGA
1 TGGAGGTGGTGGGGGAGGAGACTTATACTCGTAAGGGTGCTTGGGTGGGGA
* *
6535555 TGGAGGTGGTGGTGGAGGAGACTTGTACTCGT-AGGGATGCTTGGGTGG
1 TGGAGGTGGTGGGGGAGGAGACTTATACTCGTAAGGG-TGCTTGGGTGG
6535603 TGGTGGTTGT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 4 0.09
51 39 0.91
ACGTcount: A:0.15, C:0.07, G:0.51, T:0.27
Consensus pattern (51 bp):
TGGAGGTGGTGGGGGAGGAGACTTATACTCGTAAGGGTGCTTGGGTGGGGA
Found at i:6535645 original size:81 final size:81
Alignment explanation
Indices: 6535557--6535709 Score: 202
Period size: 81 Copynumber: 1.9 Consensus size: 81
6535547 GGTGGGGATG
* * * * *
6535557 GAGGTGGTG-GTGGAGGAGACTTGTACTCGT-AGGGATGCTTGGGTGGTGGTGGTTGTGGTGGAG
1 GAGGTGGTGAG-GGAGGAGAATTGTACTCGTAAGGG-TGCTTGGGTGGTGATGGTGGGGGTGAAG
6535620 ACTTATACTTGTAAACTA
64 ACTTATACTTGTAAACTA
* *
6535638 GAGGTGGTGAGGGTGGAGAATTGTACTTGTAAGGGTGCTTGGGTGGTGATGGTGGGGGTGAAGAC
1 GAGGTGGTGAGGGAGGAGAATTGTACTCGTAAGGGTGCTTGGGTGGTGATGGTGGGGGTGAAGAC
*
6535703 TTGTACT
66 TTATACT
6535710 CATAAGGGTG
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
81 57 0.92
82 5 0.08
ACGTcount: A:0.18, C:0.07, G:0.44, T:0.30
Consensus pattern (81 bp):
GAGGTGGTGAGGGAGGAGAATTGTACTCGTAAGGGTGCTTGGGTGGTGATGGTGGGGGTGAAGAC
TTATACTTGTAAACTA
Found at i:6535673 original size:132 final size:126
Alignment explanation
Indices: 6535472--6535754 Score: 379
Period size: 132 Copynumber: 2.2 Consensus size: 126
6535462 GACATAATGG
* * *
6535472 GGTGGTGGTGGTGGAGACTTGTACTTGTAAACTGGAGGTGGTGGGGGTGGAGACTTATACTTGTA
1 GGTGGTGGTGGTGGAGACTTGTACTTGTAAACTAGAGGTGGTGAGGGTGGAGAATTATACTTGTA
* *
6535537 AGGGTGCTTGGGTGGGGATGGAGGTGGTGGTGGAGGAGACTTGTACTCGT-AGGGATGCTTGGGT
66 AGGGTGCTTGGGTGGGGAT---GGTGGGGGT-GA--AGACTTGTACTCATAAGGG-TGCTTGGGT
6535601 GGT
124 GGT
* * *
6535604 GGTGGTTGTGGTGGAGACTTATACTTGTAAACTAGAGGTGGTGAGGGTGGAGAATTGTACTTGTA
1 GGTGGTGGTGGTGGAGACTTGTACTTGTAAACTAGAGGTGGTGAGGGTGGAGAATTATACTTGTA
* *
6535669 AGGGTGCTTGGGTGGTGATGGTGGGGGTGAAGACTTGTACTCATAAGGGTGTTTGGGTGGT
66 AGGGTGCTTGGGTGGGGATGGTGGGGGTGAAGACTTGTACTCATAAGGGTGCTTGGGTGGT
* * *
6535730 GATGGTGGGGGTGGGGACTTGTACT
1 GGTGGTGGTGGTGGAGACTTGTACT
6535755 CGTAGGGGTG
Statistics
Matches: 135, Mismatches: 15, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
126 44 0.33
127 4 0.03
128 2 0.01
129 8 0.06
132 77 0.57
ACGTcount: A:0.17, C:0.07, G:0.46, T:0.30
Consensus pattern (126 bp):
GGTGGTGGTGGTGGAGACTTGTACTTGTAAACTAGAGGTGGTGAGGGTGGAGAATTATACTTGTA
AGGGTGCTTGGGTGGGGATGGTGGGGGTGAAGACTTGTACTCATAAGGGTGCTTGGGTGGT
Found at i:6535815 original size:138 final size:138
Alignment explanation
Indices: 6535658--6535915 Score: 392
Period size: 138 Copynumber: 1.9 Consensus size: 138
6535648 GGGTGGAGAA
*
6535658 TTGTACTTGTAAGGGTGCTTGGGTGGTGATGGTGGGGGTGAAGACTTGTACTCATAAGGGTGTTT
1 TTGTACTTATAAGGGTGCTTGGGTGGTGATGGTGGGGGTGAAGACTTGTACTCATAAGGGTGTTT
* * *
6535723 GGGTGGTGATGGTGGGGGTGGGGACTTGTACTCGTAGGGGTGTTTGGGTGGTGATGGTGGTGGAG
66 GGGTGGTGATGCTGGGGGTGGGGACTTGTACTCGTAGGGATGCTTGGGTGGTGATGGTGGTGGAG
6535788 GCGGGGAC
131 GCGGGGAC
** * ** *
6535796 TTGTACTTAT-AGGGATGCTTGGGTGGTGATGGTGGGGGTGGGGATTTGTACTTGTAGGGGTGTT
1 TTGTACTTATAAGGG-TGCTTGGGTGGTGATGGTGGGGGTGAAGACTTGTACTCATAAGGGTGTT
* *
6535860 TGGGTGGTGATGCTGGTGGTGGGGACTTGTACTTGTAGGGATGCTTGGGTGGTGAT
65 TGGGTGGTGATGCTGGGGGTGGGGACTTGTACTCGTAGGGATGCTTGGGTGGTGAT
6535916 AGTGAAGGAG
Statistics
Matches: 107, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
137 4 0.04
138 103 0.96
ACGTcount: A:0.12, C:0.07, G:0.48, T:0.33
Consensus pattern (138 bp):
TTGTACTTATAAGGGTGCTTGGGTGGTGATGGTGGGGGTGAAGACTTGTACTCATAAGGGTGTTT
GGGTGGTGATGCTGGGGGTGGGGACTTGTACTCGTAGGGATGCTTGGGTGGTGATGGTGGTGGAG
GCGGGGAC
Found at i:6535929 original size:93 final size:90
Alignment explanation
Indices: 6535642--6535915 Score: 370
Period size: 90 Copynumber: 3.0 Consensus size: 90
6535632 AAACTAGAGG
* * * * * **
6535642 TGGTGAGGGTGGAGAATTGTACTTGTAAGGGTGCTTGGGTGGTGATGGTGGGGGTGAAGACTTGT
1 TGGTGGGGGTGGGGAATTGTACTTGTAGGGGTGTTTGGGTGGTGATGGTGGTGGTGGGGACTTGT
* *
6535707 ACTCATAAGGG-TGTTTGGGTGGTGA
66 ACTTAT-AGGGATGCTTGGGTGGTGA
* * *
6535732 TGGTGGGGGTGGGGACTTGTACTCGTAGGGGTGTTTGGGTGGTGATGGTGGTGGAGGCGGGGACT
1 TGGTGGGGGTGGGGAATTGTACTTGTAGGGGTGTTTGGGTGGTGATGGTGGT---GGTGGGGACT
6535797 TGTACTTATAGGGATGCTTGGGTGGTGA
63 TGTACTTATAGGGATGCTTGGGTGGTGA
* *
6535825 TGGTGGGGGTGGGGATTTGTACTTGTAGGGGTGTTTGGGTGGTGATGCTGGTGGTGGGGACTTGT
1 TGGTGGGGGTGGGGAATTGTACTTGTAGGGGTGTTTGGGTGGTGATGGTGGTGGTGGGGACTTGT
*
6535890 ACTTGTAGGGATGCTTGGGTGGTGA
66 ACTTATAGGGATGCTTGGGTGGTGA
6535915 T
1 T
6535916 AGTGAAGGAG
Statistics
Matches: 163, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
90 82 0.50
92 4 0.02
93 77 0.47
ACGTcount: A:0.13, C:0.06, G:0.49, T:0.32
Consensus pattern (90 bp):
TGGTGGGGGTGGGGAATTGTACTTGTAGGGGTGTTTGGGTGGTGATGGTGGTGGTGGGGACTTGT
ACTTATAGGGATGCTTGGGTGGTGA
Found at i:6535961 original size:138 final size:136
Alignment explanation
Indices: 6535678--6535961 Score: 320
Period size: 138 Copynumber: 2.1 Consensus size: 136
6535668 AAGGGTGCTT
*
6535678 GGGTGGTGATGGTGGGGGTGAAGACTTGTACTCATAAGGGTGTTTGGGTGGTGATGGTGGGGGTG
1 GGGTGGTGATGGTGGGGGTGAAGACTTGTACTCATAAGGGTGTTTGGGTGGTGATGCTGGGGGTG
* * * ** *
6535743 GGGACTTGTACTCGTAGGGGTGTTTGGGTGGTGATGGTGGTGGAGGCGGGGACTTGTACTTATAG
66 GGGACTTGTACTCGTAGGGATGCTTGGGTGGTGATAGTGAAGGAGGCGGGGACTTATACTTATA-
* **
6535808 GGATGCTT
130 -GATACAA
** * ** * *
6535816 GGGTGGTGATGGTGGGGGTGGGGATTTGTACTTGTAGGGGTGTTTGGGTGGTGATGCTGGTGGTG
1 GGGTGGTGATGGTGGGGGTGAAGACTTGTACTCATAAGGGTGTTTGGGTGGTGATGCTGGGGGTG
* * *
6535881 GGGACTTGTACTTGTAGGGATGCTTGGGTGGTGATAGTGAAGGAGGTGGTAGAGACTTATACTTG
66 GGGACTTGTACTCGTAGGGATGCTTGGGTGGTGATAGTGAAGGAGGCGG--G-GACTTATACTTA
6535946 TA-A-ACAA
128 TAGATACAA
6535953 GGGTTGGTG
1 GGG-TGGTG
6535962 GGGGAGGAGA
Statistics
Matches: 122, Mismatches: 20, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
137 4 0.03
138 105 0.86
140 1 0.01
141 12 0.10
ACGTcount: A:0.15, C:0.06, G:0.48, T:0.31
Consensus pattern (136 bp):
GGGTGGTGATGGTGGGGGTGAAGACTTGTACTCATAAGGGTGTTTGGGTGGTGATGCTGGGGGTG
GGGACTTGTACTCGTAGGGATGCTTGGGTGGTGATAGTGAAGGAGGCGGGGACTTATACTTATAG
ATACAA
Found at i:6537470 original size:30 final size:30
Alignment explanation
Indices: 6537436--6537602 Score: 116
Period size: 29 Copynumber: 5.7 Consensus size: 30
6537426 TTGGATACCT
*
6537436 GGGGGTAAAACAGTAATTTTGGAAAGTTCA
1 GGGGGTAAAATAGTAATTTTGGAAAGTTCA
* *
6537466 GGGGGTAAAATGGTAATTTTGGTAAAATT--
1 GGGGGTAAAATAGTAATTTTGG-AAAGTTCA
* * *
6537495 GGGGTTAAAA-ATGGAATTTTGGAAAGTTTA
1 GGGGGTAAAATA-GTAATTTTGGAAAGTTCA
* *
6537525 -GGGGTAAAATGGTAACTTTTGGTAAA-ATC-
1 GGGGGTAAAATAGTAA-TTTTGG-AAAGTTCA
* * * *
6537554 GGGGTTAAAA-ATGGAATTTTGGAGAGTTTA
1 GGGGGTAAAATA-GTAATTTTGGAAAGTTCA
*
6537584 -GGGGTAAAATGGTAATTTT
1 GGGGGTAAAATAGTAATTTT
6537603 TGGTAAAATC
Statistics
Matches: 104, Mismatches: 21, Indels: 25
0.69 0.14 0.17
Matches are distributed among these distances:
28 7 0.07
29 51 0.49
30 38 0.37
31 8 0.08
ACGTcount: A:0.35, C:0.02, G:0.31, T:0.32
Consensus pattern (30 bp):
GGGGGTAAAATAGTAATTTTGGAAAGTTCA
Found at i:6537512 original size:29 final size:30
Alignment explanation
Indices: 6537472--6537693 Score: 164
Period size: 29 Copynumber: 7.5 Consensus size: 30
6537462 TTCAGGGGGT
6537472 AAAATGGTAATTTTGGTAAAATTGGGGTTA
1 AAAATGGTAATTTTGGTAAAATTGGGGTTA
*
6537502 AAAATGG-AATTTTGG-AAAGTTTAGGGG-T-
1 AAAATGGTAATTTTGGTAAA-ATT-GGGGTTA
*
6537530 AAAATGGTAACTTTTGGTAAAATCGGGGTTA
1 AAAATGGTAA-TTTTGGTAAAATTGGGGTTA
**
6537561 AAAATGG-AATTTTGG-AGAGTTTAGGGG-T-
1 AAAATGGTAATTTTGGTA-AAATT-GGGGTTA
* *
6537589 AAAATGGTAATTTTTGGTAAAATCGAGGTTA
1 AAAATGGTAA-TTTTGGTAAAATTGGGGTTA
* *
6537620 AAAATGG-AACTTTGG-AAAGCTTAGGGG-T-
1 AAAATGGTAATTTTGGTAAA-ATT-GGGGTTA
* * * *
6537648 AAGATGGTAATTTTTGATGAAATCGGGGTTA
1 AAAATGGTAA-TTTTGGTAAAATTGGGGTTA
6537679 AAAATGG-AATTTTGG
1 AAAATGGTAATTTTGG
6537694 AAAGTTTAGG
Statistics
Matches: 149, Mismatches: 22, Indels: 43
0.70 0.10 0.20
Matches are distributed among these distances:
28 27 0.18
29 49 0.33
30 47 0.32
31 26 0.17
ACGTcount: A:0.36, C:0.03, G:0.29, T:0.33
Consensus pattern (30 bp):
AAAATGGTAATTTTGGTAAAATTGGGGTTA
Found at i:6537513 original size:59 final size:59
Alignment explanation
Indices: 6537450--6537720 Score: 418
Period size: 59 Copynumber: 4.6 Consensus size: 59
6537440 GTAAAACAGT
* *
6537450 AATTTTGGAAAGTTCAGGGGGTAAAATGGTAA-TTTTGGTAAAATTGGGGTTAAAAATGG
1 AATTTTGGAAAGTTTA-GGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGG
*
6537509 AATTTTGGAAAGTTTAGGGGTAAAATGGTAACTTTTGGTAAAATCGGGGTTAAAAATGG
1 AATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGG
* *
6537568 AATTTTGGAGAGTTTAGGGGTAAAATGGTAATTTTTGGTAAAATCGAGGTTAAAAATGG
1 AATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGG
* * * * *
6537627 AACTTTGGAAAGCTTAGGGGTAAGATGGTAATTTTTGATGAAATCGGGGTTAAAAATGG
1 AATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGG
* *
6537686 AATTTTGGAAAGTTTAGGGGCAAAATGGTACTTTT
1 AATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTT
6537721 CGGGCAGTCT
Statistics
Matches: 194, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
58 15 0.08
59 179 0.92
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.33
Consensus pattern (59 bp):
AATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGG
Found at i:6537604 original size:30 final size:29
Alignment explanation
Indices: 6537437--6537720 Score: 187
Period size: 30 Copynumber: 9.7 Consensus size: 29
6537427 TGGATACCTG
** *
6537437 GGGGTAAAACAGTAATTTTGGAAAGTTCA
1 GGGGTAAAATGGTAATTTTGGAAAGTTTA
*
6537466 GGGGGTAAAATGGTAATTTTGGTAAA-ATT-
1 -GGGGTAAAATGGTAATTTTGG-AAAGTTTA
6537495 GGGGTTAAAAATGG-AATTTTGGAAAGTTTA
1 GGGG-T-AAAATGGTAATTTTGGAAAGTTTA
* *
6537525 GGGGTAAAATGGTAACTTTTGGTAAA--ATC
1 GGGGTAAAATGGTAA-TTTTGG-AAAGTTTA
*
6537554 GGGGTTAAAAATGG-AATTTTGGAGAGTTTA
1 GGGG-T-AAAATGGTAATTTTGGAAAGTTTA
* **
6537584 GGGGTAAAATGGTAATTTTTGGTAAAATCGA
1 GGGGTAAAATGGTAA-TTTTGG-AAAGTTTA
* * *
6537615 -GGTTAAAAATGG-AACTTTGGAAAGCTTA
1 GGGGT-AAAATGGTAATTTTGGAAAGTTTA
* *
6537643 GGGGTAAGATGGTAATTTTTGATGAAA---TC
1 GGGGTAAAATGGTAA-TTTTG--GAAAGTTTA
6537672 GGGGTTAAAAATGG-AATTTTGGAAAGTTTA
1 GGGG-T-AAAATGGTAATTTTGGAAAGTTTA
* *
6537702 GGGGCAAAATGGTACTTTT
1 GGGGTAAAATGGTAATTTT
6537721 CGGGCAGTCT
Statistics
Matches: 199, Mismatches: 28, Indels: 55
0.71 0.10 0.20
Matches are distributed among these distances:
27 4 0.02
28 40 0.20
29 53 0.27
30 68 0.34
31 30 0.15
32 4 0.02
ACGTcount: A:0.35, C:0.04, G:0.30, T:0.32
Consensus pattern (29 bp):
GGGGTAAAATGGTAATTTTGGAAAGTTTA
Done.