Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold96
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: 1013983
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Warning! 499 characters in sequence are not A, C, G, or T
File 8 of 8
Found at i:937678 original size:52 final size:52
Alignment explanation
Indices: 937540--937688 Score: 185
Period size: 52 Copynumber: 2.9 Consensus size: 52
937530 CGAAATATGA
*
937540 AAATTTGCCTGCATGTATCGATACATTTCA-TAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-ATCATTAGTGTATCGATACATCTGGGC
** * ** *
937592 AAATTTGTTTGCATGTTTCGATAC-ATTTTATAGTGTATCGATACATTTGGGC
1 AAATTTGCCTGCATGTATCGATACAATCAT-TAGTGTATCGATACATCTGGGC
**
937644 AAATTTGCCTGCATGTATCGATACAAAGATTAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACAATCATTAGTGTATCGATACA
937689 ATGTATCGAT
Statistics
Matches: 81, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
50 1 0.01
52 78 0.96
53 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACAATCATTAGTGTATCGATACATCTGGGC
Found at i:937695 original size:13 final size:13
Alignment explanation
Indices: 937677--937701 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
937667 CAAAGATTAG
937677 TGTATCGATACAA
1 TGTATCGATACAA
937690 TGTATCGATACA
1 TGTATCGATACA
937702 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:937698 original size:33 final size:31
Alignment explanation
Indices: 937656--937821 Score: 102
Period size: 33 Copynumber: 5.0 Consensus size: 31
937646 ATTTGCCTGC
937656 ATGTATCGATACAAAGATTAGTGTATCGATACA
1 ATGTATCGATACAAA-ATTA-TGTATCGATACA
* * *
937689 ATGTATCGATACATTTGAGTAATGTATCGATACA
1 ATGTATCGATACA---AAATTATGTATCGATACA
* * * * *
937723 TTTTTTGGCAGTAGCTTAAA-T-TGTATCGATACA
1 ATGTATCG-A-TA-C-AAAATTATGTATCGATACA
* *
937756 TTGTATCGATACAACACTTATGTATCGATACA
1 ATGTATCGATACAA-AATTATGTATCGATACA
* *
937788 TTGTATCGATACAACACTTTATGTATCGATACA
1 ATGTATCGATACAA-A-ATTATGTATCGATACA
937821 A
1 A
937822 ATCGTTGAAA
Statistics
Matches: 104, Mismatches: 18, Indels: 22
0.72 0.12 0.15
Matches are distributed among these distances:
29 1 0.01
30 2 0.02
31 3 0.03
32 29 0.28
33 45 0.43
34 16 0.15
35 4 0.04
36 3 0.03
37 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (31 bp):
ATGTATCGATACAAAATTATGTATCGATACA
Found at i:937760 original size:13 final size:13
Alignment explanation
Indices: 937742--937800 Score: 64
Period size: 13 Copynumber: 4.1 Consensus size: 13
937732 AGTAGCTTAA
937742 ATTGTATCGATAC
1 ATTGTATCGATAC
937755 ATTGTATCGATACAAC
1 ATTGTATCGAT---AC
937771 ACTTATGTATCGATAC
1 A--T-TGTATCGATAC
937787 ATTGTATCGATAC
1 ATTGTATCGATAC
937800 A
1 A
937801 ACACTTTATG
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
13 23 0.57
14 1 0.03
16 6 0.15
18 1 0.03
19 9 0.22
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.36
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:937785 original size:32 final size:33
Alignment explanation
Indices: 937744--937820 Score: 147
Period size: 32 Copynumber: 2.4 Consensus size: 33
937734 TAGCTTAAAT
937744 TGTATCGATACATTGTATCGATACAACAC-TTA
1 TGTATCGATACATTGTATCGATACAACACTTTA
937776 TGTATCGATACATTGTATCGATACAACACTTTA
1 TGTATCGATACATTGTATCGATACAACACTTTA
937809 TGTATCGATACA
1 TGTATCGATACA
937821 AATCGTTGAA
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
32 29 0.66
33 15 0.34
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (33 bp):
TGTATCGATACATTGTATCGATACAACACTTTA
Found at i:938635 original size:58 final size:55
Alignment explanation
Indices: 938579--939022 Score: 258
Period size: 52 Copynumber: 8.9 Consensus size: 55
938569 TGTTAAAGAT
* * *
938579 GAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGACAAA
1 GAAGGCGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAA
*
938634 G-A--CGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAC--A
1 GAAGGCGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAA
*
938684 -AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T-----A
1 GAAGGCGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAA
* * * *
938727 -AAGGTGCCAATGTACTGATTCAAGGCCAGCGACATTGGGCTTAAAAGATG----A
1 GAAGGCGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT-AAAGATGACAAA
* * *
938778 G--GGTGCCAATATGCTGATTCAAGGCCAACGATATTGGA-TT-----T-----A
1 GAAGGCGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAA
* * *
938820 -AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT------
1 GAAGGCGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAA
* * * * * *
938868 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATGGGACTTAAAGGTAAAAAA
1 GAAGGCGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAA
* * * * * * * *
938923 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAACATG--GAA
1 GAAGG-CGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAA
* * * *
938977 -AATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GAAGGCGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
939023 GTGCCAATGT
Statistics
Matches: 321, Mismatches: 40, Indels: 59
0.76 0.10 0.14
Matches are distributed among these distances:
42 1 0.00
43 70 0.22
44 3 0.01
46 1 0.00
49 46 0.14
50 35 0.11
51 2 0.01
52 116 0.36
53 3 0.01
54 3 0.01
55 5 0.02
56 36 0.11
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (55 bp):
GAAGGCGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAA
Found at i:938745 original size:43 final size:43
Alignment explanation
Indices: 938683--938916 Score: 252
Period size: 43 Copynumber: 5.1 Consensus size: 43
938673 TAAAGATGAC
*
938683 AAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* * * *
938726 AAAGGTGCCAATGTACTGATTCAAGGCCAGCGACATTGGGCTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* *
938769 AAAAGATGAGGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGATTT
1 ---A-A--A-GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* * *
938819 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
*
938862 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATGGGACTT
1 ----A--AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
938911 AAAGGT
1 AAAGGT
938917 AAAAAAAAAG
Statistics
Matches: 158, Mismatches: 20, Indels: 26
0.77 0.10 0.13
Matches are distributed among these distances:
43 78 0.49
44 1 0.01
45 1 0.01
46 2 0.01
47 3 0.02
49 39 0.25
50 34 0.22
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
Found at i:939041 original size:43 final size:44
Alignment explanation
Indices: 938980--939343 Score: 430
Period size: 43 Copynumber: 8.0 Consensus size: 44
938970 CATGGAAAAT
*
938980 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA-AAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAGAAG
*
939023 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT-----AGAAG
* * *
939072 GTGCTAATATGCTGATTCAAGGCCAGCAATATTGGACTTA-AAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAGAAG
*
939115 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA-AAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAGAAG
*
939158 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT----A-GAAG
* * *
939207 GTGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTA-AAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAGAAG
*
939250 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT----A-GAAG
* * * *
939299 GTGCCAATATGCTGATTTAAGGCCAGCGATATTGGGCTTAGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAGAAG
939343 G
1 G
939344 GTTGCCACCG
Statistics
Matches: 280, Mismatches: 23, Indels: 35
0.83 0.07 0.10
Matches are distributed among these distances:
43 156 0.56
44 6 0.02
45 2 0.01
47 2 0.01
48 1 0.00
49 113 0.40
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (44 bp):
GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAGAAG
Found at i:939136 original size:21 final size:21
Alignment explanation
Indices: 939112--939179 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
939102 ATTGGACTTA
939112 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
* * *
939133 AAGGCCAGCTACAT-TG--GACTTA
1 AAGG--TGCCA-ATGTGCTGA-TTC
939155 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
939176 AAGG
1 AAGG
939180 CCAGCTACAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 12 0.35
22 8 0.24
23 5 0.15
24 2 0.06
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (21 bp):
AAGGTGCCAATGTGCTGATTC
Found at i:939142 original size:92 final size:86
Alignment explanation
Indices: 938980--939292 Score: 428
Period size: 92 Copynumber: 3.5 Consensus size: 86
938970 CATGGAAAAT
*
938980 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGG
939045 CCAGCTACATTGGACTTAAAGAAGAAG
66 CCAGCTACATTGGACTT-----A-AAG
* * *
939072 GTGCTAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGG
939137 CCAGCTACATTGGACTTAAAG
66 CCAGCTACATTGGACTTAAAG
* *
939158 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGAT
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT----A--AAGGTGCCAATGTGCTGAT
* * *
939223 TCAAGGCTAGCGATATTGGACTTAAAG
60 TCAAGGCCAGCTACATTGGACTTAAAG
*
939250 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
939293 ATGAAGGTGC
Statistics
Matches: 205, Mismatches: 10, Indels: 18
0.88 0.04 0.08
Matches are distributed among these distances:
86 41 0.20
87 1 0.00
88 1 0.00
90 1 0.00
92 161 0.79
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (86 bp):
GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGG
CCAGCTACATTGGACTTAAAG
Found at i:939158 original size:22 final size:22
Alignment explanation
Indices: 939133--939200 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 22
939123 GTGCTGATTC
939133 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTACATTGGACTTA
* * *
939155 AAGG--TGCCA-ATGTGCTGA-TTC
1 AAGGCCAGCTACAT-TG--GACTTA
939176 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTACATTGGACTTA
939198 AAG
1 AAG
939201 ATGAAGGTGC
Statistics
Matches: 33, Mismatches: 6, Indels: 14
0.62 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 11 0.33
23 5 0.15
24 2 0.06
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.24
Consensus pattern (22 bp):
AAGGCCAGCTACATTGGACTTA
Found at i:939222 original size:135 final size:135
Alignment explanation
Indices: 938980--939292 Score: 572
Period size: 135 Copynumber: 2.3 Consensus size: 135
938970 CATGGAAAAT
* *
938980 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGG
*
939045 CCAGCTACATTGGACTTAAAGAAGAAGGTGCTAATATGCTGATTCAAGGCCAGCAATATTGGACT
66 CCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACT
939110 TAAAG
131 TAAAG
939115 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGG
* * *
939180 CCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGACT
66 CCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACT
939245 TAAAG
131 TAAAG
939250 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
939293 ATGAAGGTGC
Statistics
Matches: 172, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
135 172 1.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (135 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGG
CCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACT
TAAAG
Found at i:939271 original size:21 final size:20
Alignment explanation
Indices: 939204--939271 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 20
939194 CTTAAAGATG
939204 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAAT-TGCTGATTC
* *
939225 AAGGCTAGCGATATTG--GACTTA
1 AAGG-T-GCCA-ATTGCTGA-TTC
939247 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAAT-TGCTGATTC
939268 AAGG
1 AAGG
939272 CCAGCTACAT
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 13 0.36
22 9 0.25
23 5 0.14
24 2 0.06
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.26
Consensus pattern (20 bp):
AAGGTGCCAATTGCTGATTC
Found at i:939293 original size:92 final size:87
Alignment explanation
Indices: 938980--939343 Score: 426
Period size: 92 Copynumber: 4.0 Consensus size: 87
938970 CATGGAAAAT
* *
938980 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATATGCTGATTCAAGG
*
939045 CCAGCTACATTGGACTTAAAGAAGAAG
66 CCAGCGACATTGGACTT-----AGAAG
* * * *
939072 GTGCTAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATATGCTGATTCAAGG
*
939137 CCAGCTACATTGGACTTA-AAG
66 CCAGCGACATTGGACTTAGAAG
*
939158 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGAT
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT----A--AAGGTGCCAATATGCTGAT
* *
939223 TCAAGGCTAGCGATATTGGACTTA-AAG
60 TCAAGGCCAGCGACATTGGACTTAGAAG
*
939250 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGAT
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT----A--AAGGTGCCAATATGCTGAT
* * *
939315 TTAAGGCCAGCGATATTGGGCTTAGAAG
60 TCAAGGCCAGCGACATTGGACTTAGAAG
939343 G
1 G
939344 GTTGCCACCG
Statistics
Matches: 252, Mismatches: 13, Indels: 13
0.91 0.05 0.05
Matches are distributed among these distances:
86 38 0.15
87 1 0.00
90 1 0.00
92 208 0.83
93 4 0.02
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (87 bp):
GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATATGCTGATTCAAGG
CCAGCGACATTGGACTTAGAAG
Found at i:939382 original size:33 final size:33
Alignment explanation
Indices: 939338--939540 Score: 315
Period size: 33 Copynumber: 6.2 Consensus size: 33
939328 TATTGGGCTT
*
939338 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
* *
939371 AGAATGGTTGCCACCAACTTGTGCGGGCTTTAG
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
* *
939404 AG-AGGGTTGCCGCCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
*
939435 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
939468 AAGAA-GGTTGCCACCAACTTGTGTGGGCTTTAG
1 -AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
939501 AGAAGGGTTGCCACCAACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
939533 AGAAGGGT
1 AGAAGGGT
939541 GAAAGACGCC
Statistics
Matches: 157, Mismatches: 9, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
31 3 0.02
32 64 0.41
33 86 0.55
34 4 0.03
ACGTcount: A:0.19, C:0.18, G:0.35, T:0.27
Consensus pattern (33 bp):
AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
Found at i:939679 original size:100 final size:102
Alignment explanation
Indices: 939548--940056 Score: 478
Period size: 100 Copynumber: 5.0 Consensus size: 102
939538 GGTGAAAGAC
*
939548 GCCACGAAGTTGTGGACTTTAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAG-AA
1 GCCACGGAGTTGTGGACTTTAAAA-AGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAA
* ** *
939612 GGTGTCATAGAGTTGTGGAC-TT-AAAAGGAACAGGGT
65 GGTGCCACGGAGTTGTGGACTTTAAAAAGGAACAAGGT
* * * * *
939648 GCTACGGGGTTGTGGACTTTAAAAGGGAAAAAAAGTGCCACAGAGTTGTGGGCTTTGAAAAG-AA
1 GCCACGGAGTTGTGGACTTTAAAA-AGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAA
* * * *
939712 GGTGTCACGGAGTTGCGAACTTT-GAAAGGAACAAGGT
65 GGTGCCACGGAGTTGTGGACTTTAAAAAGGAACAAGGT
* * * *
939749 GCCATGGGGTCGTGGA-TTTAAAAAG-AAAAG-GTGCCACGGAGTGGTGGGCTTTGAAAAGAAAA
1 GCCACGGAGTTGTGGACTTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAG--AA
* *
939811 AGGTGCCACGGGGTCGTGGA-TTTAAAAAGG-A-AAGGT
64 AGGTGCCACGGAGTTGTGGACTTTAAAAAGGAACAAGGT
* * * * * *
939847 GCCACGAAGTGGTGGGCTTTGAAAAGAAAAAG-GTGACACGGAGTTGTGGGCTTTTAAAAGAAAA
1 GCCACGGAGTTGTGGACTTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAG--AA
* *
939911 AGGGTGCCACGGAGTTGTGGGCTTTGAAAAA-GAAGAAGGT
64 A-GGTGCCACGGAGTTGTGGACTTT-AAAAAGGAACAAGGT
* * *
939951 GCCACGGAGTTGTGGGCTTT-AAAGGAAAAA-A-TGCCACGGAGTTGTGGACTTT-AAAAGGAAC
1 GCCACGGAGTTGTGGACTTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA-G-A-
* * *
940012 AAGACTGCCACGGAGTTGTGGGCTTTAAAAA-GAAAAAGGT
63 AAG-GTGCCACGGAGTTGTGGACTTTAAAAAGGAACAAGGT
940052 GCCAC
1 GCCAC
940057 TAAGTCATGG
Statistics
Matches: 349, Mismatches: 44, Indels: 31
0.82 0.10 0.07
Matches are distributed among these distances:
97 26 0.07
98 20 0.06
99 13 0.04
100 137 0.39
101 68 0.19
102 47 0.13
103 15 0.04
104 23 0.07
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (102 bp):
GCCACGGAGTTGTGGACTTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAG
GTGCCACGGAGTTGTGGACTTTAAAAAGGAACAAGGT
Found at i:939781 original size:32 final size:32
Alignment explanation
Indices: 939744--940056 Score: 187
Period size: 35 Copynumber: 9.3 Consensus size: 32
939734 TGAAAGGAAC
*
939744 AAGGTGCCATGGGGTCGTGGATTTAAAAAGAA
1 AAGGTGCCACGGGGTCGTGGATTTAAAAAGAA
* * * *
939776 AAGGTGCCACGGAGTGGTGGGCTTTGAAAAGAAA
1 AAGGTGCCACGGGGTCGT-GGATTTAAAAAG-AA
*
939810 AAGGTGCCACGGGGTCGTGGATTTAAAAAGGA
1 AAGGTGCCACGGGGTCGTGGATTTAAAAAGAA
** * * *
939842 AAGGTGCCACGAAGTGGTGGGCTTTGAAAAGAAA
1 AAGGTGCCACGGGGTCGT-GGATTTAAAAAG-AA
* * * * *
939876 AAGGTGACACGGAGTTGTGGGCTTTTAAAAGAAA
1 AAGGTGCCACGGGGTCGT-GGATTTAAAAAG-AA
* * *
939910 AAGGGTGCCACGGAGTTGTGGGCTTTGAAAAAGAA
1 AA-GGTGCCACGGGGTCGT-GGATTT-AAAAAGAA
* * * *
939945 GAAGGTGCCACGGAGTTGTGGGCTTT-AAAGGAA
1 -AAGGTGCCACGGGGTCGT-GGATTTAAAAAGAA
** * * *
939978 AAAATGCCACGGAGTTGTGGACTTTAAAAGGAA
1 AAGGTGCCACGGGGTCGTGGA-TTTAAAAAGAA
* * * *
940011 CAAGACTGCCACGGAGTTGTGGGCTTTAAAAAGAAA
1 -AAG-GTGCCACGGGGTCGT-GGATTTAAAAAG-AA
940047 AAGGTGCCAC
1 AAGGTGCCAC
940057 TAAGTCATGG
Statistics
Matches: 237, Mismatches: 31, Indels: 24
0.81 0.11 0.08
Matches are distributed among these distances:
31 2 0.01
32 50 0.21
33 43 0.18
34 59 0.25
35 72 0.30
36 11 0.05
ACGTcount: A:0.34, C:0.12, G:0.34, T:0.20
Consensus pattern (32 bp):
AAGGTGCCACGGGGTCGTGGATTTAAAAAGAA
Found at i:939787 original size:66 final size:67
Alignment explanation
Indices: 939548--940056 Score: 464
Period size: 66 Copynumber: 7.6 Consensus size: 67
939538 GGTGAAAGAC
* *
939548 GCCACGAAGTTGTGGACTTTAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAG---
1 GCCACGGAGTTGTGGGCTTTAAAA-AG-AAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGAAA
939610 AAGGT
63 AAGGT
* ** * * * * * *
939615 GTCATAGAGTTGTGGAC-TTAAAAGGAACAGGGTGCTACGGGGTTGTGGACTTT-AAAAGGGAAA
1 GCCACGGAGTTGTGGGCTTTAAAAAGAA-AAGGTGCCACGGAGTTGTGGGCTTTGAAAA--G-AA
*
939678 AAAAGT
62 AAAGGT
* * * * ** * *
939684 GCCACAGAGTTGTGGGCTTTGAAAAG--AAGGTGTCACGGAGTTGCGAACTTTGAAAGGAACAAG
1 GCCACGGAGTTGTGGGCTTTAAAAAGAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAG
939747 GT
66 GT
* * * * *
939749 GCCATGGGGTCGT-GGATTTAAAAAGAAAAGGTGCCACGGAGTGGTGGGCTTTGAAAAGAAAAAG
1 GCCACGGAGTTGTGGGCTTTAAAAAGAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAG
939813 GT
66 GT
* * * * * *
939815 GCCACGGGGTCGT-GGATTTAAAAAGGAAAGGTGCCACGAAGTGGTGGGCTTTGAAAAGAAAAAG
1 GCCACGGAGTTGTGGGCTTTAAAAAGAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAG
939879 GT
66 GT
* * *
939881 GACACGGAGTTGTGGGCTTTTAAAAGAAAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAAGAAG
1 GCCACGGAGTTGTGGGCTTTAAAAAG-AAAA-GGTGCCACGGAGTTGTGGGCTTTG-AAAAGAAA
939946 AAGGT
63 AAGGT
* ** * *
939951 GCCACGGAGTTGTGGGCTTT-AAAGGAAAAAATGCCACGGAGTTGTGGACTTT-AAAAGGAACAA
1 GCCACGGAGTTGTGGGCTTTAAAAAGAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-GAAAAA
*
940014 GACT
65 G-GT
940018 GCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCAC
1 GCCACGGAGTTGTGGGCTTTAAAAAG-AAAAGGTGCCAC
940057 TAAGTCATGG
Statistics
Matches: 364, Mismatches: 59, Indels: 36
0.79 0.13 0.08
Matches are distributed among these distances:
63 4 0.01
64 31 0.09
65 23 0.06
66 118 0.32
67 83 0.23
68 14 0.04
69 54 0.15
70 37 0.10
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (67 bp):
GCCACGGAGTTGTGGGCTTTAAAAAGAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAG
GT
Found at i:940087 original size:32 final size:31
Alignment explanation
Indices: 940042--940201 Score: 198
Period size: 32 Copynumber: 5.1 Consensus size: 31
940032 GGCTTTAAAA
* * *
940042 AGAAAAAGGTGCCACTAAGTCATGGACTTTG
1 AGAAAAAGATGCCACTGAGTCGTGGACTTTG
940073 AGACAAAAGATGCCACTGAGTCGTGGACTTTG
1 AGA-AAAAGATGCCACTGAGTCGTGGACTTTG
*
940105 AG-AAGAGATTGCCACTGAGTCGTGGACTTTG
1 AGAAAAAGA-TGCCACTGAGTCGTGGACTTTG
* *
940136 AGACAAA-ATGCTACTGAGTCGTGGACTTTG
1 AGAAAAAGATGCCACTGAGTCGTGGACTTTG
* * *
940166 AAGAAAATGATGCCACTAAGTCGTGGACTTTA
1 -AGAAAAAGATGCCACTGAGTCGTGGACTTTG
940198 AGAA
1 AGAA
940202 GGTATTTGAA
Statistics
Matches: 112, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
30 26 0.23
31 37 0.33
32 49 0.44
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (31 bp):
AGAAAAAGATGCCACTGAGTCGTGGACTTTG
Found at i:940134 original size:63 final size:62
Alignment explanation
Indices: 940041--940196 Score: 217
Period size: 63 Copynumber: 2.5 Consensus size: 62
940031 GGGCTTTAAA
* * *
940041 AAGAAAAAGGTGCCACTAAGTCATGGACTTTGAGACAAAAGATGCCACTGAGTCGTGGACTTTG
1 AAGAAAATGATGCCACTAAGTCGTGGACTTTGAGAC-AAA-ATGCCACTGAGTCGTGGACTTTG
* * *
940105 -AGAAGA-GATTGCCACTGAGTCGTGGACTTTGAGACAAAATGCTACTGAGTCGTGGACTTTG
1 AAGAAAATGA-TGCCACTAAGTCGTGGACTTTGAGACAAAATGCCACTGAGTCGTGGACTTTG
940166 AAGAAAATGATGCCACTAAGTCGTGGACTTT
1 AAGAAAATGATGCCACTAAGTCGTGGACTTT
940197 AAGAAGGTAT
Statistics
Matches: 82, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
61 22 0.27
62 29 0.35
63 31 0.38
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (62 bp):
AAGAAAATGATGCCACTAAGTCGTGGACTTTGAGACAAAATGCCACTGAGTCGTGGACTTTG
Found at i:941185 original size:16 final size:17
Alignment explanation
Indices: 941164--941196 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
941154 TATTTGTTTA
941164 TTTCTTCTT-CTTTTTT
1 TTTCTTCTTCCTTTTTT
*
941180 TTTCTTTTTCCTTTTTT
1 TTTCTTCTTCCTTTTTT
941197 GTTTTGTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTCTTCTTCCTTTTTT
Found at i:941209 original size:16 final size:17
Alignment explanation
Indices: 941171--941213 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
941161 TTATTTCTTC
*
941171 TTCTTTTTT-TTTCTTT
1 TTCTTTTTTGTTTCTGT
941187 TTCCTTTTTTGTTT-TGT
1 TT-CTTTTTTGTTTCTGT
941204 TTCTTTTTTG
1 TTCTTTTTTG
941214 GAAAAGAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 10 0.42
17 11 0.46
18 3 0.12
ACGTcount: A:0.00, C:0.12, G:0.07, T:0.81
Consensus pattern (17 bp):
TTCTTTTTTGTTTCTGT
Found at i:944134 original size:46 final size:46
Alignment explanation
Indices: 944081--944180 Score: 139
Period size: 46 Copynumber: 2.2 Consensus size: 46
944071 TTTATACAAA
* *
944081 CTCTCCCCCTTAATACGTT-GTCACCCTTAAACCAATAAACAATAAT
1 CTCTCCCCCTT-ATACGTTCATAACCCTTAAACCAATAAACAATAAT
* **
944127 CTCTCCCCCTTTTTGGTTCATAACCCTTAAACCAATAAACAATAAT
1 CTCTCCCCCTTATACGTTCATAACCCTTAAACCAATAAACAATAAT
944173 CTCTCCCC
1 CTCTCCCC
944181 TTTTTTGGTT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
45 4 0.08
46 44 0.92
ACGTcount: A:0.31, C:0.35, G:0.04, T:0.30
Consensus pattern (46 bp):
CTCTCCCCCTTATACGTTCATAACCCTTAAACCAATAAACAATAAT
Found at i:944186 original size:46 final size:46
Alignment explanation
Indices: 944103--944195 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
944093 ATACGTTGTC
944103 ACCCTTAAACCAATAAACAATAATCTCTCCCCCTTTTTGGTTCATA
1 ACCCTTAAACCAATAAACAATAATCTCTCCCCCTTTTTGGTTCATA
*
944149 ACCCTTAAACCAATAAACAATAATCTCTCCCCTTTTTTGGTTCATA
1 ACCCTTAAACCAATAAACAATAATCTCTCCCCCTTTTTGGTTCATA
944195 A
1 A
944196 GCTAAGTTGA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.33
Consensus pattern (46 bp):
ACCCTTAAACCAATAAACAATAATCTCTCCCCCTTTTTGGTTCATA
Found at i:945250 original size:23 final size:24
Alignment explanation
Indices: 945205--945251 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
945195 CAAAGAATTG
*
945205 AACACAAATTCAATTAAGCACAAA
1 AACACAAATTCAATTAAGAACAAA
945229 AACACAAA-TCAATTGAA-AACAAA
1 AACACAAATTCAATT-AAGAACAAA
945252 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAACAAA
Found at i:948268 original size:13 final size:13
Alignment explanation
Indices: 948250--948275 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
948240 CAATTTTTTG
948250 TGTATCGATACAT
1 TGTATCGATACAT
948263 TGTATCGATACAT
1 TGTATCGATACAT
948276 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:948290 original size:32 final size:33
Alignment explanation
Indices: 948230--948293 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
948220 TACAAGCCAA
** *
948230 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
948263 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
948294 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:955060 original size:52 final size:52
Alignment explanation
Indices: 954911--955039 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
954901 CGAAATATGA
*
954911 AAATTTTCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
954963 AAATTTGCTTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
955015 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
955040 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:955118 original size:13 final size:13
Alignment explanation
Indices: 955100--955124 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
955090 ACAAAACTTA
955100 TGTATCGATACAT
1 TGTATCGATACAT
955113 TGTATCGATACA
1 TGTATCGATACA
955125 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:955123 original size:32 final size:32
Alignment explanation
Indices: 955079--955143 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
955069 AGTAGCTTAA
955079 ATTGTATAGATACAAAACTTATGTATCGATAC
1 ATTGTATAGATACAAAACTTATGTATCGATAC
* *
955111 ATTGTATCGATACAACACTTATGTATCGATAC
1 ATTGTATAGATACAAAACTTATGTATCGATAC
955143 A
1 A
955144 ACACTTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.34
Consensus pattern (32 bp):
ATTGTATAGATACAAAACTTATGTATCGATAC
Found at i:955154 original size:20 final size:19
Alignment explanation
Indices: 955081--955164 Score: 99
Period size: 19 Copynumber: 4.7 Consensus size: 19
955071 TAGCTTAAAT
* *
955081 TGTATAGATACAAAACTTA
1 TGTATCGATACAACACTTA
955100 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
955113 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
955132 TGTATCGATACAACACTTTA
1 TGTATCGATACAACAC-TTA
955152 TGTATCGATACAA
1 TGTATCGATACAA
955165 ATCGTTGAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
13 9 0.16
14 1 0.02
16 5 0.09
18 1 0.02
19 24 0.43
20 16 0.29
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:965404 original size:33 final size:32
Alignment explanation
Indices: 965359--965422 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
965349 GTTACAAGCC
*
965359 AATGTATCGATACATTTTGGGATGTATCGATAT
1 AATGTATCGATACATATTGGG-TGTATCGATAT
* *
965392 AATGTATTGATACATATTGTGTGTATCGATA
1 AATGTATCGATACATATTGGGTGTATCGATA
965423 CAAATTTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 10 0.36
33 18 0.64
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (32 bp):
AATGTATCGATACATATTGGGTGTATCGATAT
Found at i:967507 original size:21 final size:20
Alignment explanation
Indices: 967456--967507 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
967446 GCTGCTAGTG
*
967456 TGGGGGCTGTCCGGTTGCGACC
1 TGGGGG-TG-CCGGTCGCGACC
967478 TGGGGGTGCCGGTCGCGACC
1 TGGGGGTGCCGGTCGCGACC
967498 TGGTGGGTGC
1 TGG-GGGTGC
967508 TGCCTAGGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 14 0.50
21 8 0.29
22 6 0.21
ACGTcount: A:0.04, C:0.25, G:0.50, T:0.21
Consensus pattern (20 bp):
TGGGGGTGCCGGTCGCGACC
Found at i:967692 original size:12 final size:12
Alignment explanation
Indices: 967675--967714 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
967665 ATCTGGACCC
967675 TTTTTGTTGTTT
1 TTTTTGTTGTTT
967687 TTTTTGTT-TTT
1 TTTTTGTTGTTT
*
967698 TTTTCGTTGTTT
1 TTTTTGTTGTTT
967710 TTTTT
1 TTTTT
967715 TTTTGCGGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 10 0.40
12 15 0.60
ACGTcount: A:0.00, C:0.03, G:0.12, T:0.85
Consensus pattern (12 bp):
TTTTTGTTGTTT
Found at i:967706 original size:23 final size:21
Alignment explanation
Indices: 967675--967718 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 21
967665 ATCTGGACCC
967675 TTTTTGTTGTTTTTTTTGTTTT
1 TTTTTGTTGTTTTTTTT-TTTT
967697 TTTTTCGTTGTTTTTTTTTTTT
1 TTTTT-GTTGTTTTTTTTTTTT
967719 GCGGAGTACG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.86
Consensus pattern (21 bp):
TTTTTGTTGTTTTTTTTTTTT
Found at i:981632 original size:52 final size:52
Alignment explanation
Indices: 981550--981696 Score: 217
Period size: 52 Copynumber: 2.8 Consensus size: 52
981540 AATATGAAAT
981550 TTTGCCTGCATGTATCGATAC-ATTTCATAGTGTATCGATACATCTGGGCAAA
1 TTTGCCTGCATGTATCGATACAATTT-ATAGTGTATCGATACATCTGGGCAAA
* *
981602 TTTGCCAGTATGTATCGATACAATTTATAGTGTATCGATACATCTGGGCAAA
1 TTTGCCTGCATGTATCGATACAATTTATAGTGTATCGATACATCTGGGCAAA
* **
981654 TTTTCCTGCATGTATCGATACAA-AGATCAGTGTATCGATACAT
1 TTTGCCTGCATGTATCGATACAATTTAT-AGTGTATCGATACAT
981697 TTGAGTAATG
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.93
53 4 0.05
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
TTTGCCTGCATGTATCGATACAATTTATAGTGTATCGATACATCTGGGCAAA
Found at i:981775 original size:13 final size:13
Alignment explanation
Indices: 981757--981813 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
981747 ACAAAACTTA
981757 TGTATCGATACAT
1 TGTATCGATACAT
981770 TGTATCGGTATAACACTT
1 TGTATC-G-AT-ACA--T
981788 ATGTATCGATACAT
1 -TGTATCGATACAT
981802 TGTATCGATACA
1 TGTATCGATACA
981814 ACACTTTGTG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 18 0.47
14 2 0.05
15 2 0.05
16 6 0.16
17 2 0.05
18 2 0.05
19 6 0.16
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:981776 original size:32 final size:32
Alignment explanation
Indices: 981733--981833 Score: 148
Period size: 32 Copynumber: 3.1 Consensus size: 32
981723 GGCAGTAGCT
* *
981733 TACATTATATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
* *
981765 TACATTGTATCGGTATAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
*
981797 TACATTGTATCGATACAACACTTTGTGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
981830 TACA
1 TACA
981834 AATCATTGAA
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
32 47 0.77
33 14 0.23
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.36
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:981780 original size:19 final size:19
Alignment explanation
Indices: 981758--981808 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 19
981748 CAAAACTTAT
981758 GTATCGATACATTGTATCG
1 GTATCGATACATTGTATCG
*
981777 GTAT--A-ACACT-TAT--
1 GTATCGATACATTGTATCG
981790 GTATCGATACATTGTATCG
1 GTATCGATACATTGTATCG
981809 ATACAACACT
Statistics
Matches: 24, Mismatches: 2, Indels: 12
0.63 0.05 0.32
Matches are distributed among these distances:
13 4 0.17
15 4 0.17
16 8 0.33
17 4 0.17
19 4 0.17
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (19 bp):
GTATCGATACATTGTATCG
Found at i:982823 original size:31 final size:31
Alignment explanation
Indices: 982782--982865 Score: 99
Period size: 28 Copynumber: 2.9 Consensus size: 31
982772 TTAAATAAGA
982782 TGCCACCAACTTGTGTGGGCTTTTGAAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAA-GGT
982814 TG-CACCAACTTGTGT--GCTTTTG-AAGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAAGGT
**
982841 TGCCACTGAC-T-TGTGGGCTTTTGAA
1 TGCCACCAACTTGTGTGGGCTTTTGAA
982866 GAGATACCAC
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
26 3 0.07
27 6 0.13
28 14 0.30
29 8 0.17
31 13 0.28
32 2 0.04
ACGTcount: A:0.18, C:0.19, G:0.29, T:0.35
Consensus pattern (31 bp):
TGCCACCAACTTGTGTGGGCTTTTGAAAGGT
Found at i:982913 original size:59 final size:59
Alignment explanation
Indices: 982836--983160 Score: 444
Period size: 59 Copynumber: 5.5 Consensus size: 59
982826 TGTGCTTTTG
* * *
982836 AAGGTTGCCACTGACTTGTGGGCTTTTGAAGAGATACCACTGACTTGTGGGCTTTGGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGGAA
* *
982895 AAGGGTGCCACTGGCTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGGAA
* * *
982954 AAGGGTGCCACTGACTTATGGGCTTTGGAAAAGATGCCATTGACTTGTGGGCTTTGGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGGAA
** * *
983013 AA-TATGCCACTGACTTGTGGGC-TTTGAAAAAGGGTGCCACTGACTTGTGGGCTTTGAAA
1 AAGGGTGCCACTGACTTGTGGGCTTTTG-AAAA-GATGCCACTGACTTGTGGGCTTTGGAA
* * *
983072 AAGGGTGCCACTGACTTGTGGGC-TTTG-AAGGTTGCCACTGACTTGTGGGCTTTGGGAG
1 AAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTT-GGAA
*
983130 AAGGGTGCCACTGATTTGTGGGC-TTTGAAAA
1 AAGGGTGCCACTGACTTGTGGGCTTTTGAAAA
983161 AGAGTGATAT
Statistics
Matches: 238, Mismatches: 23, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
57 25 0.11
58 51 0.21
59 140 0.59
60 22 0.09
ACGTcount: A:0.22, C:0.16, G:0.33, T:0.29
Consensus pattern (59 bp):
AAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGGAA
Found at i:982939 original size:88 final size:89
Alignment explanation
Indices: 982841--983162 Score: 463
Period size: 88 Copynumber: 3.7 Consensus size: 89
982831 TTTTGAAGGT
* * * * *
982841 TGCCACTGACTTGTGGGCTTTTGAAGA-GATACCACTGACTTGTGGGCTTTGGAAAAGGGTGCCA
1 TGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAAGGGTGCCA
*
982905 CTGGCTTGTGGGCTTTGGAAAAGA
66 CTGACTTGTGGGCTTTGGAAAAGA
* * *
982929 TGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTATGGGCTTTGGAAAA-GATGCCA
1 TGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAAGGGTGCCA
* *
982993 TTGACTTGTGGGCTTTGGAAAATA
66 CTGACTTGTGGGCTTTGGAAAAGA
*
983017 TGCCACTGACTTGTGGGCTTTGAAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAAGGGTGCCA
1 TGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAAGGGTGCCA
* *
983082 CTGACTTGTGGGCTTT-G-AAGGT
66 CTGACTTGTGGGCTTTGGAAAAGA
* *
983104 TGCCACTGACTTGTGGGCTTTGGGAGAAGGGTGCCACTGATTTGTGGGCTTTGAAAAAG
1 TGCCACTGACTTGTGGGCTTT-GGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAAG
983163 AGTGATATCC
Statistics
Matches: 211, Mismatches: 20, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
87 23 0.11
88 141 0.67
89 47 0.22
ACGTcount: A:0.22, C:0.16, G:0.33, T:0.29
Consensus pattern (89 bp):
TGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAAGGGTGCCA
CTGACTTGTGGGCTTTGGAAAAGA
Found at i:986000 original size:21 final size:20
Alignment explanation
Indices: 985978--986016 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
985968 TTTGAGTTAT
985978 TTTAAT-TTGAAAATATATGA
1 TTTAATCTTGAAAA-ATATGA
985998 TTTAATGCTTGAAAAATAT
1 TTTAAT-CTTGAAAAATAT
986017 TTATAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 4 0.24
22 7 0.41
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.44
Consensus pattern (20 bp):
TTTAATCTTGAAAAATATGA
Found at i:991706 original size:2 final size:2
Alignment explanation
Indices: 991699--991763 Score: 103
Period size: 2 Copynumber: 32.5 Consensus size: 2
991689 GGAACTGGTG
* *
991699 AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
991741 AT AT AT AT AT GT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
991764 GATAGGATAG
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:991723 original size:16 final size:16
Alignment explanation
Indices: 991699--991763 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
991689 GGAACTGGTG
*
991699 ATATATATATATATAT
1 ATATGTATATATATAT
991715 ATATGTATATATATAT
1 ATATGTATATATATAT
991731 ATATGTATATATATAT
1 ATATGTATATATATAT
991747 ATATGTATATATATAT
1 ATATGTATATATATAT
991763 A
1 A
991764 GATAGGATAG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (16 bp):
ATATGTATATATATAT
Found at i:994330 original size:20 final size:21
Alignment explanation
Indices: 994305--994343 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
994295 CTAAACAACC
994305 CATGTT-CATGCATTTTAAGA
1 CATGTTCCATGCATTTTAAGA
994325 CATGTTCCATGCATTTTAA
1 CATGTTCCATGCATTTTAA
994344 CATGTCCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (21 bp):
CATGTTCCATGCATTTTAAGA
Found at i:998408 original size:13 final size:13
Alignment explanation
Indices: 998390--998415 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
998380 TACAGCAAGT
998390 ATGTATCGATACA
1 ATGTATCGATACA
998403 ATGTATCGATACA
1 ATGTATCGATACA
998416 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:999197 original size:13 final size:13
Alignment explanation
Indices: 999179--999204 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
999169 CAATTTTTTG
999179 TGTATCGATACAT
1 TGTATCGATACAT
999192 TGTATCGATACAT
1 TGTATCGATACAT
999205 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:999934 original size:16 final size:16
Alignment explanation
Indices: 999903--999948 Score: 74
Period size: 16 Copynumber: 2.8 Consensus size: 16
999893 CTCTCCTTTG
999903 TCTCCCCCGTTTAAAAAA
1 TCTCCCCC--TTAAAAAA
999921 TCTCCCCCTTAAAAAA
1 TCTCCCCCTTAAAAAA
999937 TCTCCCCCTTAA
1 TCTCCCCCTTAA
999949 TCAAGTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 20 0.71
18 8 0.29
ACGTcount: A:0.30, C:0.39, G:0.02, T:0.28
Consensus pattern (16 bp):
TCTCCCCCTTAAAAAA
Found at i:1001772 original size:13 final size:13
Alignment explanation
Indices: 1001754--1001792 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1001744 ATAATCACCC
*
1001754 TGTATCGATACAG
1 TGTATCGATACAA
1001767 TGTATCGATACAA
1 TGTATCGATACAA
1001780 TGTATCGATACAA
1 TGTATCGATACAA
1001793 CAAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1001803 original size:20 final size:20
Alignment explanation
Indices: 1001778--1001856 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
1001768 GTATCGATAC
1001778 AATGTATCGATACAACAAAA
1 AATGTATCGATACAACAAAA
* *
1001798 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACA-ACAA----AA
*
1001823 GATGTATCGATAC-ACAAAA
1 AATGTATCGATACAACAAAA
1001842 ACATGTATCGATACA
1 A-ATGTATCGATACA
1001857 TTTTGGACAT
Statistics
Matches: 46, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
19 1 0.02
20 26 0.57
21 3 0.07
23 3 0.07
25 13 0.28
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAACAAAA
Found at i:1003902 original size:15 final size:15
Alignment explanation
Indices: 1003866--1003903 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
1003856 TACATCAATT
* *
1003866 TCATTTGGAGCTTCT
1 TCATTTTGAGCTTCC
1003881 TCATTTTGAGCTTCC
1 TCATTTTGAGCTTCC
1003896 TCATTTTG
1 TCATTTTG
1003904 GACATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.13, C:0.21, G:0.16, T:0.50
Consensus pattern (15 bp):
TCATTTTGAGCTTCC
Found at i:1007984 original size:13 final size:13
Alignment explanation
Indices: 1007966--1007991 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1007956 CAATTTTTTG
1007966 TGTATCGATACAT
1 TGTATCGATACAT
1007979 TGTATCGATACAT
1 TGTATCGATACAT
1007992 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1008077 original size:20 final size:20
Alignment explanation
Indices: 1008052--1008124 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1008042 ATCTTTTTTT
1008052 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1008072 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1008093 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1008113 ATGTATCGATAC
1 ATGTATCGATAC
1008125 TTTGAGTTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1008103 original size:41 final size:42
Alignment explanation
Indices: 1008030--1008124 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
1008020 CTGCCAAGAA
*
1008030 ATGTATCGATACATCTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
1008072 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
1008113 ATGTATCGATAC
1 ATGTATCGATAC
1008125 TTTGAGTTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 37 0.71
42 15 0.29
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:1008504 original size:19 final size:19
Alignment explanation
Indices: 1008461--1008545 Score: 101
Period size: 19 Copynumber: 4.7 Consensus size: 19
1008451 ATTTCAACGA
*
1008461 TTTGTATTGATACATAAAAT
1 TTTGTATCGATACAT-AAAT
*
1008481 ATTGTATCGATACATAAAT
1 TTTGTATCGATACATAAAT
1008500 TTTGTATCGATAC----A-
1 TTTGTATCGATACATAAAT
1008514 -TTGTATCGATACATAAAT
1 TTTGTATCGATACATAAAT
1008532 TTTGTATCGATACA
1 TTTGTATCGATACA
1008546 ATTTAAGCTA
Statistics
Matches: 56, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
13 12 0.21
15 1 0.02
17 1 0.02
19 29 0.52
20 13 0.23
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.41
Consensus pattern (19 bp):
TTTGTATCGATACATAAAT
Found at i:1008519 original size:13 final size:13
Alignment explanation
Indices: 1008501--1008527 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1008491 TACATAAATT
1008501 TTGTATCGATACA
1 TTGTATCGATACA
1008514 TTGTATCGATACA
1 TTGTATCGATACA
1008527 T
1 T
1008528 AAATTTTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1008522 original size:32 final size:32
Alignment explanation
Indices: 1008481--1008545 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
1008471 TACATAAAAT
1008481 ATTGTATCGATACATAAATTTTGTATCGATAC
1 ATTGTATCGATACATAAATTTTGTATCGATAC
1008513 ATTGTATCGATACATAAATTTTGTATCGATAC
1 ATTGTATCGATACATAAATTTTGTATCGATAC
1008545 A
1 A
1008546 ATTTAAGCTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (32 bp):
ATTGTATCGATACATAAATTTTGTATCGATAC
Found at i:1008605 original size:13 final size:13
Alignment explanation
Indices: 1008587--1008611 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1008577 ATTACTCAAA
1008587 TGTATCGATACAT
1 TGTATCGATACAT
1008600 TGTATCGATACA
1 TGTATCGATACA
1008612 CTGATCTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1008719 original size:52 final size:52
Alignment explanation
Indices: 1008619--1008746 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
1008609 ACACTGATCT
* * *
1008619 TGTATCGATACATGCAGG-AAAATTGCCTAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1008670 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1008722 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1008747 TCATATTTCG
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 18 0.25
52 55 0.75
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1009613 original size:21 final size:21
Alignment explanation
Indices: 1009580--1009620 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1009570 TTCATGTAAC
*
1009580 AAGCCATGATTCATGCATTTT
1 AAGCCATGATTCATGAATTTT
* *
1009601 AAGCTATGCTTCATGAATTT
1 AAGCCATGATTCATGAATTT
1009621 ATGACATGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (21 bp):
AAGCCATGATTCATGAATTTT
Found at i:1011886 original size:32 final size:33
Alignment explanation
Indices: 1011816--1011891 Score: 91
Period size: 32 Copynumber: 2.3 Consensus size: 33
1011806 CGACCGATTT
*
1011816 GAACCCAAAAATAACTCGAACCCGAAATAACCC
1 GAACCCAAAATTAACTCGAACCCGAAATAACCC
* * * *
1011849 AAACCCAAAATTACCT-GAACCCGAAATGACTC
1 GAACCCAAAATTAACTCGAACCCGAAATAACCC
*
1011881 GAACCCGAAAT
1 GAACCCAAAAT
1011892 GACCCAAACT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
32 23 0.64
33 13 0.36
ACGTcount: A:0.46, C:0.32, G:0.11, T:0.12
Consensus pattern (33 bp):
GAACCCAAAATTAACTCGAACCCGAAATAACCC
Found at i:1011894 original size:16 final size:16
Alignment explanation
Indices: 1011824--1011891 Score: 75
Period size: 16 Copynumber: 4.2 Consensus size: 16
1011814 TTGAACCCAA
1011824 AAATAACTCGAACCCG
1 AAATAACTCGAACCCG
* * *
1011840 AAATAACCCAAACCCA
1 AAATAACTCGAACCCG
*
1011856 AAATTAC-CTGAACCCG
1 AAATAACTC-GAACCCG
*
1011872 AAATGACTCGAACCCG
1 AAATAACTCGAACCCG
1011888 AAAT
1 AAAT
1011892 GACCCAAACT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
15 1 0.02
16 41 0.95
17 1 0.02
ACGTcount: A:0.46, C:0.31, G:0.10, T:0.13
Consensus pattern (16 bp):
AAATAACTCGAACCCG
Done.