Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007859.1 Hibiscus syriacus cultivar Beakdansim tig00110221_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3538007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 16 of 18
Found at i:3199573 original size:20 final size:20
Alignment explanation
Indices: 3199548--3199609 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
3199538 TTTTGGTTGA
*
3199548 AATGAAAATCACAACGAGAG
1 AATGAAAATCGCAACGAGAG
*
3199568 AATGAAAATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
*
3199587 AACGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
3199607 AAT
1 AAT
3199610 CGCAACGACA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
19 17 0.47
20 19 0.53
ACGTcount: A:0.52, C:0.18, G:0.21, T:0.10
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:3199612 original size:14 final size:14
Alignment explanation
Indices: 3199591--3199630 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
3199581 ACGCGAAACG
*
3199591 AAAATCGCAACGAG
1 AAAATCGCAACGAC
*
3199605 AGAATCGCAACGAC
1 AAAATCGCAACGAC
3199619 AAAATCGCAACG
1 AAAATCGCAACG
3199631 CGAAACCAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.47, C:0.25, G:0.20, T:0.07
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:3199644 original size:20 final size:20
Alignment explanation
Indices: 3199619--3199656 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
3199609 TCGCAACGAC
3199619 AAAATCGCAACGCGAAACCA
1 AAAATCGCAACGCGAAACCA
3199639 AAAATCGCAACGCGAAAC
1 AAAATCGCAACGCGAAAC
3199657 TATAATCGCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.29, G:0.16, T:0.05
Consensus pattern (20 bp):
AAAATCGCAACGCGAAACCA
Found at i:3199718 original size:33 final size:33
Alignment explanation
Indices: 3199680--3199759 Score: 124
Period size: 33 Copynumber: 2.4 Consensus size: 33
3199670 TGATTTTTGG
* * *
3199680 TTTCGCGTTGCGATTTTGTCGTTACGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTACAATTTTCA
*
3199713 TTTCGCGTTGCGATTCTCTCGTTGCAATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTACAATTTTCA
3199746 TTTCGCGTTGCGAT
1 TTTCGCGTTGCGAT
3199760 AGTCATTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.46
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTACAATTTTCA
Found at i:3199726 original size:19 final size:19
Alignment explanation
Indices: 3199699--3199783 Score: 63
Period size: 19 Copynumber: 4.6 Consensus size: 19
3199689 GCGATTTTGT
*
3199699 CGTTACGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
3199718 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
*
3199732 CGTTGCAATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
** *
3199751 CGTTGCGATAGTCATTTTTCA
1 CGTTGCGATTTTCA--TTTCG
3199772 CGTTGCGATTTT
1 CGTTGCGATTTT
3199784 AAGTTCCATT
Statistics
Matches: 49, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
14 9 0.18
16 3 0.06
17 3 0.06
19 20 0.41
21 14 0.29
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.46
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:3200253 original size:42 final size:42
Alignment explanation
Indices: 3200177--3200265 Score: 106
Period size: 42 Copynumber: 2.1 Consensus size: 42
3200167 GACTCACCTC
* * *
3200177 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCCTA
* * * * *
3200219 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCCTA
3200261 TCATC
1 TCATC
3200266 GTTGAAGAGG
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.21, C:0.38, G:0.17, T:0.24
Consensus pattern (42 bp):
TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCCTA
Found at i:3201666 original size:14 final size:14
Alignment explanation
Indices: 3201647--3201682 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
3201637 ATTGTTTAAT
3201647 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
3201661 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
3201675 TGATTTGT
1 TGATTTGT
3201683 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:3201811 original size:19 final size:18
Alignment explanation
Indices: 3201789--3201844 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 18
3201779 AAAAATGACT
3201789 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
3201808 ATCGCAA-CG--A-GAGA
1 ATCGCAAGCGAAATGAAA
3201822 ATCGCAACGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
3201841 ATCG
1 ATCG
3201845 TAACGACAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
14 10 0.33
15 1 0.03
16 2 0.07
17 2 0.07
18 1 0.03
19 14 0.47
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.12
Consensus pattern (18 bp):
ATCGCAAGCGAAATGAAA
Found at i:3201834 original size:33 final size:33
Alignment explanation
Indices: 3201789--3201887 Score: 130
Period size: 33 Copynumber: 3.0 Consensus size: 33
3201779 AAAAATGACT
* * *
3201789 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
*
3201822 ATCGCAACGCGAAATGAAAATCGTAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
*
3201855 ATCGCAACGCGAAACT-AAAATAGCAACG-CAAA
1 ATCGCAACGCGAAA-TGAAAATCGCAACGACAAA
3201887 A
1 A
3201888 CTAAATTCGC
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
32 5 0.08
33 53 0.90
34 1 0.02
ACGTcount: A:0.48, C:0.21, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:3201880 original size:19 final size:19
Alignment explanation
Indices: 3201852--3201892 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
3201842 TCGTAACGAC
* *
3201852 AAAATCGCAACGCGAAACT
1 AAAATAGCAACGCAAAACT
3201871 AAAATAGCAACGCAAAACT
1 AAAATAGCAACGCAAAACT
3201890 AAA
1 AAA
3201893 TTCGCGGTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.56, C:0.22, G:0.12, T:0.10
Consensus pattern (19 bp):
AAAATAGCAACGCAAAACT
Found at i:3201922 original size:19 final size:18
Alignment explanation
Indices: 3201900--3202043 Score: 96
Period size: 19 Copynumber: 8.3 Consensus size: 18
3201890 AAATTCGCGG
3201900 TGCGATTTTCATTTCGCTT
1 TGCGATTTTCATTTCGC-T
**
3201919 TGCGA--TTC-CCTCG-T
1 TGCGATTTTCATTTCGCT
3201933 TGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGC-T
*
3201952 TGCGA--TTC-TCTCG-T
1 TGCGATTTTCATTTCGCT
3201966 TGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGC-T
*
3201985 TGCGA--TTC-TCTCG-T
1 TGCGATTTTCATTTCGCT
3201999 TGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGC-T
**
3202018 TGCGATAGTCATTTCCGCGT
1 TGCGATTTTCATTT-CGC-T
3202038 TGCGAT
1 TGCGAT
3202044 AGACATTAAG
Statistics
Matches: 98, Mismatches: 11, Indels: 31
0.70 0.08 0.22
Matches are distributed among these distances:
14 18 0.18
16 20 0.20
17 20 0.20
19 30 0.31
20 10 0.10
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.44
Consensus pattern (18 bp):
TGCGATTTTCATTTCGCT
Found at i:3201942 original size:33 final size:33
Alignment explanation
Indices: 3201900--3202023 Score: 230
Period size: 33 Copynumber: 3.8 Consensus size: 33
3201890 AAATTCGCGG
* *
3201900 TGCGATTTTCATTTCGCTTTGCGATTCCCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
3201933 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
3201966 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
3201999 TGCGATTTTCATTTCGCATTGCGAT
1 TGCGATTTTCATTTCGCATTGCGAT
3202024 AGTCATTTCC
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 89 1.00
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.45
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:3201970 original size:14 final size:14
Alignment explanation
Indices: 3201918--3202005 Score: 59
Period size: 14 Copynumber: 5.6 Consensus size: 14
3201908 TCATTTCGCT
*
3201918 TTGCGATTCCCTCG
1 TTGCGATTCTCTCG
*
3201932 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
3201949 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
*
3201965 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
3201982 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
3201998 TTGCGATT
1 TTGCGATT
3202006 TTCATTTCGC
Statistics
Matches: 59, Mismatches: 5, Indels: 20
0.70 0.06 0.24
Matches are distributed among these distances:
14 20 0.34
16 14 0.24
17 13 0.22
19 12 0.20
ACGTcount: A:0.11, C:0.25, G:0.19, T:0.44
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:3202042 original size:20 final size:20
Alignment explanation
Indices: 3201996--3202089 Score: 68
Period size: 20 Copynumber: 4.7 Consensus size: 20
3201986 GCGATTCTCT
**
3201996 CGTTGCGATTTTCATTT-CG
1 CGTTGCGATAGTCATTTCCG
*
3202015 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
* **
3202035 CGTTGCGATAGACA-TTAAG
1 CGTTGCGATAGTCATTTCCG
*
3202054 ATGATTGCGA-ACGTCATTTCCG
1 -CG-TTGCGATA-GTCATTTCCG
*
3202076 TGTTGCGATAGTCA
1 CGTTGCGATAGTCA
3202090 AATGAATGCC
Statistics
Matches: 58, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
19 17 0.29
20 26 0.45
21 12 0.21
22 3 0.05
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:3205296 original size:22 final size:21
Alignment explanation
Indices: 3205253--3205296 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
3205243 TGCCGGATGG
** *
3205253 GGAAGGATGTCGTTGGATATA
1 GGAAGGATGTCGCCGGAGATA
3205274 GGAACGGATGTCGCCGGAGATA
1 GGAA-GGATGTCGCCGGAGATA
3205296 G
1 G
3205297 TGATAGATGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.27, C:0.11, G:0.41, T:0.20
Consensus pattern (21 bp):
GGAAGGATGTCGCCGGAGATA
Found at i:3205488 original size:20 final size:20
Alignment explanation
Indices: 3205465--3205876 Score: 332
Period size: 20 Copynumber: 20.2 Consensus size: 20
3205455 AGAATCTCGT
3205465 TGCGATTTAC-TAAATCGCAA
1 TGCGA-TTACGTAAATCGCAA
*
3205485 TGCGATTACGTAAATCGAAA
1 TGCGATTACGTAAATCGCAA
* * * *
3205505 TACGAATTAGGAAAATCGTAA
1 TGCG-ATTACGTAAATCGCAA
*
3205526 TGCGAATACGTAAATCGCAA
1 TGCGATTACGTAAATCGCAA
3205546 TGCGATTACGTAAATCGCAA
1 TGCGATTACGTAAATCGCAA
* *
3205566 TGCGAATTAGGAAAATCGCAA
1 TGCG-ATTACGTAAATCGCAA
* * *
3205587 TGTGAATTAGGAAAATCGCAA
1 TGCG-ATTACGTAAATCGCAA
3205608 TGCGATTACGTAAATCGCAA
1 TGCGATTACGTAAATCGCAA
* * *
3205628 TGCGAATAGGAAAATCGCAA
1 TGCGATTACGTAAATCGCAA
3205648 TGCGATTACGTAAATCGCAA
1 TGCGATTACGTAAATCGCAA
*
3205668 TGCGAATTA-GCAAAATCGCAA
1 TGCG-ATTACG-TAAATCGCAA
*
3205689 TGCGATTACGTAAATCGCAT
1 TGCGATTACGTAAATCGCAA
* *
3205709 TGCGATTACGT-ATTCGCAT
1 TGCGATTACGTAAATCGCAA
* * * *
3205728 TGCGATTTTCCTAATTCGCAT
1 TGCGA-TTACGTAAATCGCAA
*
3205749 TGCGATTTACGT-AATCGCAT
1 TGCGA-TTACGTAAATCGCAA
* * * *
3205769 TGCGATTTTCCTAATTCGCAT
1 TGCGA-TTACGTAAATCGCAA
*
3205790 TGCGATTTACGT-AATCGCAT
1 TGCGA-TTACGTAAATCGCAA
* * * *
3205810 TGCGATTTTCCTAATTCGCAT
1 TGCGA-TTACGTAAATCGCAA
* *
3205831 TGCGATTTACGT-ATTCGCAT
1 TGCGA-TTACGTAAATCGCAA
* *
3205851 TGCGAATTAGGAAAATCGCAA
1 TGCG-ATTACGTAAATCGCAA
*
3205872 CGCGA
1 TGCGA
3205877 ATTTGGGAAA
Statistics
Matches: 332, Mismatches: 48, Indels: 24
0.82 0.12 0.06
Matches are distributed among these distances:
19 16 0.05
20 183 0.55
21 133 0.40
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (20 bp):
TGCGATTACGTAAATCGCAA
Found at i:3205522 original size:41 final size:41
Alignment explanation
Indices: 3205476--3205713 Score: 354
Period size: 41 Copynumber: 5.8 Consensus size: 41
3205466 GCGATTTACT
* *
3205476 AAATCGCAATGCGATTACGTAAATCGAAATACGAATTAGGA
1 AAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGA
* * * *
3205517 AAATCGTAATGCGAATACGTAAATCGCAATGCG-ATTACGT
1 AAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGA
* * *
3205557 AAATCGCAATGCGAATTAGGAAAATCGCAATGTGAATTAGGA
1 AAATCGCAATGCG-ATTACGTAAATCGCAATGCGAATTAGGA
3205599 AAATCGCAATGCGATTACGTAAATCGCAATGCGAA-TAGGA
1 AAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGA
*
3205639 AAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGCA
1 AAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGA
*
3205680 AAATCGCAATGCGATTACGTAAATCGCATTGCGA
1 AAATCGCAATGCGATTACGTAAATCGCAATGCGA
3205714 TTACGTATTC
Statistics
Matches: 176, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
40 57 0.32
41 101 0.57
42 18 0.10
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (41 bp):
AAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGA
Found at i:3205545 original size:61 final size:61
Alignment explanation
Indices: 3205475--3205734 Score: 339
Period size: 61 Copynumber: 4.3 Consensus size: 61
3205465 TGCGATTTAC
* * *
3205475 TAAATCGCAATGCGATTACGTAAATCGAAATACGAATTAGGAAAATCGTAATGCGAATACG
1 TAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAATCGCAATGCGAATACG
* *
3205536 TAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAATCGCAATGTGAATTAGG
1 TAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAATCGCAATGCGAA-TACG
* *
3205598 AAAATCGCAATGCGATTACGTAAATCGCAATGCGAA-TAGGAAAATCGCAATGCGATTACG
1 TAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAATCGCAATGCGAATACG
* * * * *
3205658 TAAATCGCAATGCGAATTA-GCAAAATCGCAATGCG-ATTACGTAAATCGCATTGCGATTACG
1 TAAATCGCAATGCG-ATTACG-TAAATCGCAATGCGAATTAGGAAAATCGCAATGCGAATACG
* *
3205719 T-ATTCGCATTGCGATT
1 TAAATCGCAATGCGATT
3205735 TTCCTAATTC
Statistics
Matches: 179, Mismatches: 16, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
59 3 0.02
60 28 0.16
61 110 0.61
62 38 0.21
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (61 bp):
TAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAATCGCAATGCGAATACG
Found at i:3205819 original size:82 final size:80
Alignment explanation
Indices: 3205600--3205855 Score: 289
Period size: 81 Copynumber: 3.2 Consensus size: 80
3205590 GAATTAGGAA
* * * * * * * * * *
3205600 AATCGCAATGCGATTACGTAAATCGCAATGCGAATAGGAAAATCGCAATGCGA-TTACGTAAATC
1 AATCGCATTGCGATTACCTAAATCGCATTGCGATTACG-TAATCGCATTGCGATTTTCCTAATTC
* * **
3205664 GCAATGCGAATTAGCAA
65 GCATTGCGATTTA-CGT
* * *
3205681 AATCGCAATGCGATTACGTAAATCGCATTGCGATTACGTATTCGCATTGCGATTTTCCTAATTCG
1 AATCGCATTGCGATTACCTAAATCGCATTGCGATTACGTAATCGCATTGCGATTTTCCTAATTCG
3205746 CATTGCGATTTACGT
66 CATTGCGATTTACGT
* *
3205761 AATCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTAATCGCATTGCGATTTTCCTAATT
1 AATCGCATTGCGA-TTACCTAAATCGCATTGCGA-TTACGTAATCGCATTGCGATTTTCCTAATT
3205826 CGCATTGCGATTTACGT
64 CGCATTGCGATTTACGT
*
3205843 ATTCGCATTGCGA
1 AATCGCATTGCGA
3205856 ATTAGGAAAA
Statistics
Matches: 153, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
80 24 0.16
81 71 0.46
82 58 0.38
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (80 bp):
AATCGCATTGCGATTACCTAAATCGCATTGCGATTACGTAATCGCATTGCGATTTTCCTAATTCG
CATTGCGATTTACGT
Found at i:3205870 original size:41 final size:40
Alignment explanation
Indices: 3205477--3205876 Score: 306
Period size: 41 Copynumber: 9.8 Consensus size: 40
3205467 CGATTTACTA
* * * *
3205477 AATCGCAATGCG-ATTACGTAAATCGAAATACGAATTAGGAA
1 AATCGCAATGCGAATTACGTAAATCGCAATGCG-ATTACG-T
*
3205518 AATCGTAATGCGAA-TACGTAAATCGCAATGCGATTACGT
1 AATCGCAATGCGAATTACGTAAATCGCAATGCGATTACGT
* * * * *
3205557 AAATCGCAATGCGAATTAGGAAAATCGCAATGTGAATTAGGAA
1 -AATCGCAATGCGAATTACGTAAATCGCAATGCG-ATTACG-T
* * *
3205600 AATCGCAATGCG-ATTACGTAAATCGCAATGCGAATAGGAA
1 AATCGCAATGCGAATTACGTAAATCGCAATGCGATTACG-T
**
3205640 AATCGCAATGCG-ATTACGTAAATCGCAATGCGAATTAGCAA
1 AATCGCAATGCGAATTACGTAAATCGCAATGCG-ATTA-CGT
*
3205681 AATCGCAATGCG-ATTACGTAAATCGCATTGCGATTACGT
1 AATCGCAATGCGAATTACGTAAATCGCAATGCGATTACGT
* * * * * * *
3205720 ATTCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGT
1 AATCGCAATGCGAATTACGTAAATCGCAATGCGA-TTACGT
* * * * * *
3205761 AATCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGT
1 AATCGCAATGCGAATTACGTAAATCGCAATGCGA-TTACGT
* * * * * *
3205802 AATCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGT
1 AATCGCAATGCGAATTACGTAAATCGCAATGCGA-TTACGT
* * * * *
3205843 ATTCGCATTGCGAATTAGGAAAATCGCAACGCGA
1 AATCGCAATGCGAATTACGTAAATCGCAATGCGA
3205877 ATTTGGGAAA
Statistics
Matches: 313, Mismatches: 37, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
39 11 0.04
40 78 0.25
41 206 0.66
42 18 0.06
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (40 bp):
AATCGCAATGCGAATTACGTAAATCGCAATGCGATTACGT
Found at i:3205897 original size:21 final size:21
Alignment explanation
Indices: 3205845--3205897 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
3205835 ATTTACGTAT
*
3205845 TCGCATTGCGAATTAGGAAAA
1 TCGCAATGCGAATTAGGAAAA
* * *
3205866 TCGCAACGCGAATTTGGGAAA
1 TCGCAATGCGAATTAGGAAAA
*
3205887 TCGCTATGCGA
1 TCGCAATGCGA
3205898 TAGTCAGAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTAGGAAAA
Found at i:3206243 original size:24 final size:24
Alignment explanation
Indices: 3206198--3206243 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
3206188 TAGTCCATTT
*
3206198 TTTTATATTAATATCAGCTTCACA
1 TTTTATATTAATATCAACTTCACA
*
3206222 TTTTATAATTAAT-TCAATTTCA
1 TTTTAT-ATTAATATCAACTTCA
3206244 TCCCTCATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.35, C:0.13, G:0.02, T:0.50
Consensus pattern (24 bp):
TTTTATATTAATATCAACTTCACA
Found at i:3206469 original size:9 final size:9
Alignment explanation
Indices: 3206426--3206463 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
3206416 CATAACATTC
3206426 ATTATACAT
1 ATTATACAT
3206435 ATTATACAT
1 ATTATACAT
*
3206444 ATTATATAT
1 ATTATACAT
*
3206453 ATTATATAT
1 ATTATACAT
3206462 AT
1 AT
3206464 ATTATAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (9 bp):
ATTATACAT
Found at i:3206763 original size:24 final size:25
Alignment explanation
Indices: 3206720--3206768 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
3206710 CAATTTGGTC
3206720 CATTTGTATATTAATATCAACTTCA
1 CATTTGTATATTAATATCAACTTCA
*
3206745 CATTT-TATAATTAAT-TCAATTTCA
1 CATTTGTAT-ATTAATATCAACTTCA
3206769 TCCCTCATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.37, C:0.14, G:0.02, T:0.47
Consensus pattern (25 bp):
CATTTGTATATTAATATCAACTTCA
Found at i:3206855 original size:2 final size:2
Alignment explanation
Indices: 3206843--3206962 Score: 183
Period size: 2 Copynumber: 61.0 Consensus size: 2
3206833 TTTAATACTT
*
3206843 TA TA TA CA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3206884 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
3206926 TA TA TA TA TA TA TA GTA TA -A TG TA CA T- TA TA TA TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
3206963 CATGCATCAT
Statistics
Matches: 108, Mismatches: 6, Indels: 8
0.89 0.05 0.07
Matches are distributed among these distances:
1 3 0.03
2 103 0.95
3 2 0.02
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:3207357 original size:24 final size:24
Alignment explanation
Indices: 3207312--3207357 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
3207302 TTTAGTCCAT
*
3207312 TTTTATATTAATATCAGCTTCACA
1 TTTTATATTAATATCAACTTCACA
*
3207336 TTTTATAATTAAT-TCAATTTCA
1 TTTTAT-ATTAATATCAACTTCA
3207358 TCCCTCATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.35, C:0.13, G:0.02, T:0.50
Consensus pattern (24 bp):
TTTTATATTAATATCAACTTCACA
Found at i:3207444 original size:2 final size:2
Alignment explanation
Indices: 3207432--3207627 Score: 185
Period size: 2 Copynumber: 99.0 Consensus size: 2
3207422 TTTGGTACTT
* * *
3207432 TA TA TA CA TA TA TA AA CTA TA -A GA TA TA -A GTA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA
3207474 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
3207516 TA TA TA TA TA TA -A TA TCA TA TA TA TA CA TA AA TA TCA T- TA TA
1 TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA T-A TA TA TA
* * * *
3207558 TCA TA T- TCA TA AA TT TCA T- TA TA CA TA T- TA TA CA TA T- TA
1 T-A TA TA T-A TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA
3207597 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3207628 ATTGTTTTAA
Statistics
Matches: 161, Mismatches: 17, Indels: 32
0.77 0.08 0.15
Matches are distributed among these distances:
1 9 0.06
2 142 0.88
3 10 0.06
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.45
Consensus pattern (2 bp):
TA
Found at i:3207974 original size:569 final size:574
Alignment explanation
Indices: 3206348--3208064 Score: 2334
Period size: 569 Copynumber: 3.0 Consensus size: 574
3206338 AAGGTATAAG
* * * * *
3206348 TATATATGTATATATATATATACATATATAAAGTATAATGTACA-T-TATATATACATGCATCAT
1 TATATATATATATATATATATATATATATATAGTATAATATACATTATATATATACATACATCAT
* *
3206411 ATTATCATAACATTCATTATACATATTATAC-----AT-AT-TATATATAT-TATATATATATTA
66 ATTATCATAACATTCATTACACACATTATACATATTATAATATATATATATATATATATATATTA
3206468 TAATTGTTTTAATTTTTCTTCACATTTTACAATTTTTTGATTTGATCATTTTATGTTGTTTATTG
131 TAATTGTTTTAATTTTTCTTCACATTTTACAATTTTTTGATTTGATCATTTTATGTTGTTTATTG
3206533 TATTTAAA-TTTAAATTTTTAATTTTATGTTTGTTCAGTTTAGTCCTTCAAA-TATTATTTGTAT
196 TATTTAAATTTTAAA-TTTTAATTTTATGTTTGTTCAGTTTAGTCCTTCAAATTA-TATTTGTAT
3206596 CTGAAATTGACCCATACTTGTTTATATTTTTGTAATTTACTTAAAACCTTATAAAATGTAAATCA
259 CTGAAATTGACCCATACTTGTTTATATTTTTGTAATTTACTTAAAACCTTATAAAATGTAAATCA
* *
3206661 CATAATAAATTTGTTTTTAAATTATGTTCACCAACTTTTTAAATGTATGCAATTTGGTCCATTTG
324 CATAATAAATTTCTTTTTAAATTATGTTCACCAACTTTTTAAATGTATGCAATTTAGTCCATTTG
3206726 TATATTAATATCAACTTCACATTTTATAATTAATTCAATTTCATCCCTCATCAATGCGTGTTGTT
389 TATATTAATATCAACTTCACATTTTATAATTAATTCAATTTCATCCCTCATCAATGCGTGTTGTT
* *
3206791 TAATTTATTCAATTTTTTATTTCTAATTTCATGTTTGTTCAATTTAATACTTTATATACATATAT
454 TAATTTATTCAATTTTTTATTTCCAATTTCATGTTTGTTCAATTTGATACTTTATATACATATAT
*
3206856 --A-TATATATATAA-TATATATATATATATATATATATATATATATATATATATA
519 AAACTATAAATATAAGTATATATATATATATATATATATATATATATATATATATA
* *
3206908 TATATATATATATATATATATATATATATATAGTATAATGTACATTATATATATACATGCATCAT
1 TATATATATATATATATATATATATATATATAGTATAATATACATTATATATATACATACATCAT
** * * *
3206973 ATTATCATAACATTCATTACACACACACACACATATTATAAT-TGATTTA-ATTTCCCCA-ACTT
66 ATTATCATAACATTCATTACACACA-TTATACATATTATAATAT-ATATATATAT----ATA--T
* * * ** *
3207035 TTGAAATTAATGCAATTCAATCCATTTTACAAAATTTCCTCACATTTTAC-ATTTTTTGATTTGA
123 AT-ATATT-AT--AA-T---T--GTTTT--AATTTTTCTTCACATTTTACAATTTTTTGATTTGA
* * * *
3207099 TTC-TTTTATGTTGTTTATTGTTTTTAAATTTT-AATTAGTAATTTCATATTTGTTCTA-TTTAG
176 -TCATTTTATGTTGTTTATTGTATTTAAATTTTAAATT-TTAATTTTATGTTTGTTC-AGTTTAG
* ** * * * *
3207161 TCCTTCAAATTATACTCATATCTAAAATTGAACCATACTTATTTATA-TTTTGTGATTTACTTAA
238 TCCTTCAAATTATATTTGTATCTGAAATTGACCCATACTTGTTTATATTTTTGTAATTTACTT--
* * * * *
3207225 AACAACACCTATAAAATGTAAAACACATAATACATTTCTTTTCAAATTATGTTGACCAACTTTTT
301 AA-AAC-CTTATAAAATGTAAATCACATAATAAATTTCTTTTTAAATTATGTTCACCAACTTTTT
* *
3207290 AAATGTATGCAATTTAGTCCATTTTTATATTAATATCAGCTTCACATTTTATAATTAATTCAATT
364 AAATGTATGCAATTTAGTCCATTTGTATATTAATATCAACTTCACATTTTATAATTAATTCAATT
* *
3207355 TCATCCCTCATCAATGTGTGTTGCTTAATTTATTCAATTTTTTATTTCCAATTTCATGTTTGTTC
429 TCATCCCTCATCAATGCGTGTTGTTTAATTTATTCAATTTTTTATTTCCAATTTCATGTTTGTTC
*
3207420 AATTTGGTACTTTATATACATATATAAACTATAAGATATAAGTATATATATATATATATATATAT
494 AATTTGATACTTTATATACATATATAAACTATAA-ATATAAGTATATATATATATATATATATAT
3207485 ATATATATATATATATA
558 ATATATATATATATATA
*
3207502 TATATATATATATATATATATATATA-ATATCA-TAT-ATATACA-TA-A-ATAT-CATTATATC
1 TATATATATATATATATATATATATATATAT-AGTATAATATACATTATATATATACA-TACATC
* *
3207560 ATA-T-TCATAA-ATTTCATTATACATATTATACATATTATATATATATATATATATATATATAT
64 ATATTATCATAACA-TTCATTACACACATTATACATATTATA-ATATATATATATATATATATAT
3207622 ATTATAATTGTTTTAATTTTTCTTCACATTTTACAATTTTTTGATTTGATCATTTTATGTTGTTT
127 ATTATAATTGTTTTAATTTTTCTTCACATTTTACAATTTTTTGATTTGATCATTTTATGTTGTTT
*
3207687 ATTGTATTTAAATTTTAAATTTTAATTTTATGTTTGTTCAGTTTACTCCTTCAAATTATATTTGT
192 ATTGTATTTAAATTTTAAATTTTAATTTTATGTTTGTTCAGTTTAGTCCTTCAAATTATATTTGT
3207752 ATCTGAAATTGACCCATACTTGTTTATATTTTTGTAATTTACTTAAAACCTTATAAAATGTAAAT
257 ATCTGAAATTGACCCATACTTGTTTATATTTTTGTAATTTACTTAAAACCTTATAAAATGTAAAT
3207817 CACATAATAAATTTCTTTTTAAATTATGTTCACCAACTTTTTAAATGTATGCAATTTAGTCCATT
322 CACATAATAAATTTCTTTTTAAATTATGTTCACCAACTTTTTAAATGTATGCAATTTAGTCCATT
* * * *
3207882 TGTATATTAATATCAACTTCACATTTTACAATTAATTCAATTTTATCCCTCGTCATTGCGTGTTG
387 TGTATATTAATATCAACTTCACATTTTATAATTAATTCAATTTCATCCCTCATCAATGCGTGTTG
* * * *
3207947 TTTAATTTATTCAATATTTTATTTCCAATTTCATTTTTATTCAATTTGATATTTTATATACATAT
452 TTTAATTTATTCAATTTTTTATTTCCAATTTCATGTTTGTTCAATTTGATACTTTATATACATAT
*
3208012 ATAAACTATAAAGTATAAGTATATATGTATGA-ATATATATATATATATATATA
517 ATAAACTATAAA-TATAAGTATATATATAT-ATATATATATATATATATATATA
3208065 AAGTATAAAG
Statistics
Matches: 1012, Mismatches: 88, Indels: 105
0.84 0.07 0.09
Matches are distributed among these distances:
560 41 0.04
561 1 0.00
562 41 0.04
563 3 0.00
568 3 0.00
569 246 0.24
570 9 0.01
571 22 0.02
572 102 0.10
573 23 0.02
574 1 0.00
575 3 0.00
576 4 0.00
577 2 0.00
578 1 0.00
579 4 0.00
580 1 0.00
581 2 0.00
582 4 0.00
583 3 0.00
584 1 0.00
585 21 0.02
586 110 0.11
587 50 0.05
588 10 0.01
589 210 0.21
590 1 0.00
591 3 0.00
592 10 0.01
593 13 0.01
594 67 0.07
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.48
Consensus pattern (574 bp):
TATATATATATATATATATATATATATATATAGTATAATATACATTATATATATACATACATCAT
ATTATCATAACATTCATTACACACATTATACATATTATAATATATATATATATATATATATATTA
TAATTGTTTTAATTTTTCTTCACATTTTACAATTTTTTGATTTGATCATTTTATGTTGTTTATTG
TATTTAAATTTTAAATTTTAATTTTATGTTTGTTCAGTTTAGTCCTTCAAATTATATTTGTATCT
GAAATTGACCCATACTTGTTTATATTTTTGTAATTTACTTAAAACCTTATAAAATGTAAATCACA
TAATAAATTTCTTTTTAAATTATGTTCACCAACTTTTTAAATGTATGCAATTTAGTCCATTTGTA
TATTAATATCAACTTCACATTTTATAATTAATTCAATTTCATCCCTCATCAATGCGTGTTGTTTA
ATTTATTCAATTTTTTATTTCCAATTTCATGTTTGTTCAATTTGATACTTTATATACATATATAA
ACTATAAATATAAGTATATATATATATATATATATATATATATATATATATATA
Found at i:3208001 original size:17 final size:18
Alignment explanation
Indices: 3207960--3208003 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 18
3207950 AATTTATTCA
3207960 ATATTTTATTTCCAATTTC
1 ATATTTTA-TTCCAATTTC
*
3207979 AT-TTTTATT-CAATTTG
1 ATATTTTATTCCAATTTC
3207995 ATATTTTAT
1 ATATTTTAT
3208004 ATACATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 8 0.35
17 8 0.35
18 5 0.22
19 2 0.09
ACGTcount: A:0.27, C:0.09, G:0.02, T:0.61
Consensus pattern (18 bp):
ATATTTTATTCCAATTTC
Found at i:3208094 original size:22 final size:21
Alignment explanation
Indices: 3208055--3208133 Score: 79
Period size: 22 Copynumber: 3.7 Consensus size: 21
3208045 TATATATATA
3208055 TATATATATAAAGT-ATAAAG
1 TATATATATAAAGTAATAAAG
3208075 TATATACTATAAAGTAATAAAG
1 TATATA-TATAAAGTAATAAAG
* * * *
3208097 TGTTTGTATATAAGTATTAAAG
1 TATATATATA-AAGTAATAAAG
*
3208119 TATATAAATATAAGT
1 TATATATATA-AAGT
3208134 TTTAAATATA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 6 0.12
21 12 0.25
22 30 0.62
ACGTcount: A:0.49, C:0.01, G:0.11, T:0.38
Consensus pattern (21 bp):
TATATATATAAAGTAATAAAG
Found at i:3208113 original size:8 final size:8
Alignment explanation
Indices: 3208102--3208199 Score: 59
Period size: 8 Copynumber: 13.0 Consensus size: 8
3208092 TAAAGTGTTT
3208102 GTATATAA
1 GTATATAA
3208110 GTAT-TAAA
1 GTATAT-AA
3208118 GTATATAA
1 GTATATAA
3208126 --ATATAA
1 GTATATAA
*
3208132 GT-TTTAA
1 GTATATAA
*
3208139 ATATA-AA
1 GTATATAA
3208146 GTATATAA
1 GTATATAA
*
3208154 GTACATAA
1 GTATATAA
3208162 GTACTA-AA
1 GTA-TATAA
*
3208170 GCATATAA
1 GTATATAA
3208178 -TATA-AA
1 GTATATAA
* *
3208184 TTATTTAA
1 GTATATAA
*
3208192 CTATATAA
1 GTATATAA
3208200 TATGAGTATT
Statistics
Matches: 69, Mismatches: 11, Indels: 20
0.69 0.11 0.20
Matches are distributed among these distances:
6 8 0.12
7 20 0.29
8 39 0.57
9 2 0.03
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.37
Consensus pattern (8 bp):
GTATATAA
Found at i:3208133 original size:14 final size:15
Alignment explanation
Indices: 3208010--3208153 Score: 81
Period size: 14 Copynumber: 10.0 Consensus size: 15
3208000 TTATATACAT
*
3208010 ATATAAACTATA-AA
1 ATATAAAGTATATAA
* *
3208024 GTAT-AAGTATATAT
1 ATATAAAGTATATAA
* * *
3208038 GTATGAA-TATATAT
1 ATATAAAGTATATAA
*
3208052 ATATATA-TATATAA
1 ATATAAAGTATATAA
3208066 AGTATAAAGTATAT-A
1 A-TATAAAGTATATAA
*
3208081 CTATAAAGTA-ATAA
1 ATATAAAGTATATAA
* **
3208095 AGTGT-TTGTATATAA
1 A-TATAAAGTATATAA
*
3208110 GTATTAAAGTATATAA
1 ATA-TAAAGTATATAA
*
3208126 ATAT-AAGT-TTTAA
1 ATATAAAGTATATAA
3208139 ATATAAAGTATATAA
1 ATATAAAGTATATAA
3208154 GTACATAAGT
Statistics
Matches: 99, Mismatches: 20, Indels: 21
0.71 0.14 0.15
Matches are distributed among these distances:
13 16 0.16
14 48 0.48
15 20 0.20
16 15 0.15
ACGTcount: A:0.51, C:0.01, G:0.10, T:0.38
Consensus pattern (15 bp):
ATATAAAGTATATAA
Found at i:3208151 original size:22 final size:24
Alignment explanation
Indices: 3208102--3208156 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 24
3208092 TAAAGTGTTT
3208102 GTATATAAGTATTAAAGTATATAA
1 GTATATAAGTATTAAAGTATATAA
*
3208126 --ATATAAGTTTTAAA-TATA-AA
1 GTATATAAGTATTAAAGTATATAA
3208146 GTATATAAGTA
1 GTATATAAGTA
3208157 CATAAGTACT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
20 2 0.07
21 4 0.15
22 21 0.78
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (24 bp):
GTATATAAGTATTAAAGTATATAA
Found at i:3214706 original size:23 final size:23
Alignment explanation
Indices: 3214674--3214720 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
3214664 GAAATCTTGG
3214674 CACTAGAACGTACTCCAAACAAT
1 CACTAGAACGTACTCCAAACAAT
*
3214697 CACTATAACGTACTCCAAACAAT
1 CACTAGAACGTACTCCAAACAAT
3214720 C
1 C
3214721 TTGACACTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.32, G:0.06, T:0.19
Consensus pattern (23 bp):
CACTAGAACGTACTCCAAACAAT
Found at i:3216237 original size:18 final size:18
Alignment explanation
Indices: 3216214--3216274 Score: 72
Period size: 18 Copynumber: 3.4 Consensus size: 18
3216204 TGGAATGTAA
3216214 GATTACCAGTGGGAATAG
1 GATTACCAGTGGGAATAG
*
3216232 GATTACCA-T-GGAATGTAA
1 GATTACCAGTGGGAA--TAG
*
3216250 GATTATCAGTGGGAATAG
1 GATTACCAGTGGGAATAG
3216268 GATTACC
1 GATTACC
3216275 GGCAGGAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
16 4 0.11
17 1 0.03
18 25 0.71
19 1 0.03
20 4 0.11
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.26
Consensus pattern (18 bp):
GATTACCAGTGGGAATAG
Found at i:3216250 original size:36 final size:36
Alignment explanation
Indices: 3216203--3216274 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
3216193 CGTTTGGTTT
3216203 ATGGAATGTAAGATTACCAGTGGGAATAGGATTACC
1 ATGGAATGTAAGATTACCAGTGGGAATAGGATTACC
*
3216239 ATGGAATGTAAGATTATCAGTGGGAATAGGATTACC
1 ATGGAATGTAAGATTACCAGTGGGAATAGGATTACC
3216275 GGCAGGAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.36, C:0.10, G:0.28, T:0.26
Consensus pattern (36 bp):
ATGGAATGTAAGATTACCAGTGGGAATAGGATTACC
Found at i:3219101 original size:21 final size:20
Alignment explanation
Indices: 3219076--3219118 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
3219066 CATTTTTAAC
3219076 AAAATA-AACATATACTATTTA
1 AAAATATAA-ATA-ACTATTTA
*
3219097 AAAATATAAATAATTATTTA
1 AAAATATAAATAACTATTTA
3219117 AA
1 AA
3219119 CGAGTTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 9 0.45
21 9 0.45
22 2 0.10
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAATATAAATAACTATTTA
Found at i:3219497 original size:29 final size:28
Alignment explanation
Indices: 3219454--3219510 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 28
3219444 TTCTTGTTCT
3219454 TTCATTTTTTTCATTTGTAATTCATGTA
1 TTCATTTTTTTCATTTGTAATTCATGTA
3219482 TTCATTTTTTTTCATTTGTAATTCATGTA
1 TTCA-TTTTTTTCATTTGTAATTCATGTA
3219511 ATTTAGTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 4 0.14
29 24 0.86
ACGTcount: A:0.21, C:0.11, G:0.07, T:0.61
Consensus pattern (28 bp):
TTCATTTTTTTCATTTGTAATTCATGTA
Found at i:3230424 original size:16 final size:18
Alignment explanation
Indices: 3230393--3230425 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
3230383 ATAAACGAAG
3230393 GTAAACGAACGAACATAC
1 GTAAACGAACGAACATAC
3230411 GTAAAC-AA-GAACATA
1 GTAAACGAACGAACATA
3230426 AACGAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.55, C:0.18, G:0.15, T:0.12
Consensus pattern (18 bp):
GTAAACGAACGAACATAC
Found at i:3239643 original size:3 final size:3
Alignment explanation
Indices: 3239573--3239630 Score: 93
Period size: 3 Copynumber: 19.7 Consensus size: 3
3239563 TTCATTTGAA
3239573 TAT TAT T-T ATAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
3239618 TAT TAT T-T TAT TA
1 TAT TAT TAT TAT TA
3239631 ATAAATATTA
Statistics
Matches: 52, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
2 3 0.06
3 48 0.92
4 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:3240950 original size:3 final size:3
Alignment explanation
Indices: 3240942--3240973 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
3240932 TGTTTACTTT
*
3240942 TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
3240974 TACTTATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:3241029 original size:24 final size:23
Alignment explanation
Indices: 3240964--3241029 Score: 55
Period size: 24 Copynumber: 2.8 Consensus size: 23
3240954 TTATTATTAT
3240964 TATTATTATTTACTTATAAATATATA
1 TATT-TTATTTA-TTA-AAATATATA
* * *
3240990 TA-TTTATATAAT-AAATAATATG
1 TATTTTATTTATTAAAAT-ATATA
3241012 TATTTTATTTATTAAAAT
1 TATTTTATTTATTAAAAT
3241030 CTTAGTTAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
21 4 0.12
22 6 0.19
23 9 0.28
24 10 0.31
25 1 0.03
26 2 0.06
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (23 bp):
TATTTTATTTATTAAAATATATA
Found at i:3252460 original size:15 final size:14
Alignment explanation
Indices: 3252440--3252545 Score: 97
Period size: 15 Copynumber: 7.1 Consensus size: 14
3252430 TATTATGCTT
3252440 GAAGAAAAATAAAAA
1 GAAGAAAAA-AAAAA
3252455 GAAGAAAAAGAAAAA
1 GAAGAAAAA-AAAAA
*
3252470 GAA-AAAATAAAGAA
1 GAAGAAAA-AAAAAA
3252484 GAAGAAGAAAAAAAA
1 GAAGAA-AAAAAAAA
*
3252499 GAAAAGAAAAAAAAA
1 GAAGA-AAAAAAAAA
*
3252514 GAAAAAAAAGGAAAAA
1 GAAGAAAAA--AAAAA
* *
3252530 AAAGGAAAAAAAAA
1 GAAGAAAAAAAAAA
3252544 GA
1 GA
3252546 GGGGGTCAAG
Statistics
Matches: 77, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
14 21 0.27
15 42 0.55
16 14 0.18
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (14 bp):
GAAGAAAAAAAAAA
Found at i:3252464 original size:9 final size:9
Alignment explanation
Indices: 3252450--3252539 Score: 61
Period size: 8 Copynumber: 10.6 Consensus size: 9
3252440 GAAGAAAAAT
3252450 AAAAAGAAG
1 AAAAAGAAG
3252459 --AAA-AAG
1 AAAAAGAAG
3252465 AAAAAGAA-
1 AAAAAGAAG
3252473 AAAATA-AAG
1 AAAA-AGAAG
*
3252482 AAGAAGAAG
1 AAAAAGAAG
*
3252491 AAAAAAAAG
1 AAAAAGAAG
3252500 -AAAAGAA-
1 AAAAAGAAG
3252507 AAAAA-AAG
1 AAAAAGAAG
*
3252515 AAAAAAAAGG
1 AAAAAGAA-G
*
3252525 AAAAAAAAGG
1 AAAAAGAA-G
3252535 AAAAA
1 AAAAA
3252540 AAAAGAGGGG
Statistics
Matches: 67, Mismatches: 4, Indels: 19
0.74 0.04 0.21
Matches are distributed among these distances:
6 3 0.04
7 5 0.07
8 25 0.37
9 18 0.27
10 16 0.24
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.01
Consensus pattern (9 bp):
AAAAAGAAG
Found at i:3252465 original size:6 final size:6
Alignment explanation
Indices: 3252456--3252543 Score: 69
Period size: 6 Copynumber: 15.2 Consensus size: 6
3252446 AAATAAAAAG
* *
3252456 AAGAAA AAGAAA AAGAAA AA-ATA AAGAAG AAGAAGA AA-AAA AAG-AA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAA-A AAGAAA AAGAAA
* * * *
3252502 AAGAAA AAAAAA GAAAAAA AAGGAA AA-AAA AGGAAA AA-AAA A
1 AAGAAA AAGAAA -AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA A
3252544 GAGGGGGTCA
Statistics
Matches: 66, Mismatches: 10, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
5 19 0.29
6 39 0.59
7 8 0.12
ACGTcount: A:0.83, C:0.00, G:0.16, T:0.01
Consensus pattern (6 bp):
AAGAAA
Found at i:3252513 original size:10 final size:10
Alignment explanation
Indices: 3252450--3252545 Score: 95
Period size: 10 Copynumber: 9.0 Consensus size: 10
3252440 GAAGAAAAAT
*
3252450 AAAAAGAAGAA
1 AAAAAAAAG-A
3252461 AAAGAAAAAGA
1 AAA-AAAAAGA
3252472 AAAAATAAAGA
1 AAAAA-AAAGA
3252483 AGAAGAAGAAA-A
1 A-AA-AA-AAAGA
3252495 AAAAGAAAAGA
1 AAAA-AAAAGA
3252506 AAAAAAAAGA
1 AAAAAAAAGA
*
3252516 AAAAAAAGGA
1 AAAAAAAAGA
*
3252526 AAAAAAAGGA
1 AAAAAAAAGA
3252536 AAAAAAAAGA
1 AAAAAAAAGA
3252546 GGGGGTCAAG
Statistics
Matches: 75, Mismatches: 4, Indels: 13
0.82 0.04 0.14
Matches are distributed among these distances:
10 40 0.53
11 21 0.28
12 9 0.12
13 5 0.07
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.01
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:3252540 original size:9 final size:9
Alignment explanation
Indices: 3252490--3252541 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
3252480 AGAAGAAGAA
*
3252490 GAAAAAAAA
1 GAAAAAAAG
*
3252499 GAAAAGAA-
1 GAAAAAAAG
3252507 -AAAAAAAG
1 GAAAAAAAG
*
3252515 AAAAAAAAG
1 GAAAAAAAG
3252524 GAAAAAAAAG
1 G-AAAAAAAG
3252534 GAAAAAAA
1 GAAAAAAA
3252542 AAGAGGGGGT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
7 6 0.16
9 22 0.59
10 9 0.24
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (9 bp):
GAAAAAAAG
Found at i:3254514 original size:124 final size:113
Alignment explanation
Indices: 3254190--3254719 Score: 519
Period size: 113 Copynumber: 4.6 Consensus size: 113
3254180 TAGCAAAGAT
* * * *
3254190 TCAAATCCATCACTTGATGGATCAGTTTTTCCAGAGAAAGTTCATAATGAGAAGAAATCATCTGA
1 TCAAATCCATCACTAGATAGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
*
3254255 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGA
* * * * * * * * *
3254303 TCGAATTCATCATTCGATAGATCAGCGTTGCC--AGAAGGTTCATAATAAGAAGAACTTATCTGA
1 TCAAATCCATCACTAGATAGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
*
3254366 AG-AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGA
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGA
** * * ** *
3254413 TTGACTCTATCACATAAAAAGATAGATCAGCATTAACATTTCCAGTTAGAGTTCATAATGAGAAG
1 TCAAATCCATCAC-T----AGATAGATCAGC--T----TTTCCAGAGAAAGTTCATAATGAGAAG
* * * * *
3254478 AACTCATCTGAAGAAGGAAGAATAAGTTCATAATGAGAAGAGCTTATTCGACCTTTTGC
55 AACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGA
* * * *
3254537 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATATAA
1 TCAAATCCATCACTAGATAGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* * *
3254602 AGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGA
* * ** * * ** * * *
3254650 TTAAATTCATCACCCGGTGGATCAGCAGTGCCAGTTG-GAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCACTAGATAGATCAGCTTTTCCAG-AGAAAGTTCATAATGAGAAGAACTCATCTG
3254714 AAGAAG
65 AAGAAG
3254720 AATTTGTTCA
Statistics
Matches: 339, Mismatches: 63, Indels: 30
0.78 0.15 0.07
Matches are distributed among these distances:
110 51 0.15
111 30 0.09
113 155 0.46
114 1 0.00
115 11 0.03
117 1 0.00
119 10 0.03
121 4 0.01
123 28 0.08
124 48 0.14
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (113 bp):
TCAAATCCATCACTAGATAGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGA
Found at i:3255188 original size:3 final size:3
Alignment explanation
Indices: 3255182--3255235 Score: 74
Period size: 3 Copynumber: 17.7 Consensus size: 3
3255172 TTCATTTGAA
*
3255182 TAT TAT T-T ATAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAAA
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
3255228 TAT TAT TA
1 TAT TAT TA
3255236 CAGGCCCAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
2 1 0.02
3 42 0.91
4 3 0.07
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:3256533 original size:3 final size:3
Alignment explanation
Indices: 3256525--3256583 Score: 109
Period size: 3 Copynumber: 19.7 Consensus size: 3
3256515 TGTTTACTTT
*
3256525 TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3256573 TTA TTA TTA TT
1 TTA TTA TTA TT
3256584 TAACTATAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:3256606 original size:24 final size:23
Alignment explanation
Indices: 3256589--3256637 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
3256579 TTATTTAACT
*
3256589 ATAAAT-ATATATA-TTTATATA
1 ATAAATAATATATATTTTATTTA
*
3256610 ATAAATAATATGTATTTTATTTA
1 ATAAATAATATATATTTTATTTA
*
3256633 TTAAA
1 ATAAA
3256638 ATCTTAGTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 6 0.26
22 6 0.26
23 11 0.48
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
ATAAATAATATATATTTTATTTA
Found at i:3256817 original size:20 final size:20
Alignment explanation
Indices: 3256763--3256817 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
3256753 AAAAAAATAA
* *
3256763 ATATCTTATTTTATAAATTAT
1 ATAT-TTATTTTTTTAATTAT
* *
3256784 ATATTAATTGTTTTAATTAT
1 ATATTTATTTTTTTAATTAT
*
3256804 TTATTTATTTTTTT
1 ATATTTATTTTTTT
3256818 TATATCAAAG
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 23 0.85
21 4 0.15
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (20 bp):
ATATTTATTTTTTTAATTAT
Found at i:3256899 original size:23 final size:25
Alignment explanation
Indices: 3256867--3256912 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
3256857 CCTTTTGTGA
*
3256867 TATTTCTAAATA-A-ATAAATATTT
1 TATTTATAAATATATATAAATATTT
3256890 TATTTATAAATATATATAAATAT
1 TATTTATAAATATATATAAATAT
3256913 ATATATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 11 0.55
24 1 0.05
25 8 0.40
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (25 bp):
TATTTATAAATATATATAAATATTT
Found at i:3260516 original size:26 final size:26
Alignment explanation
Indices: 3260452--3260517 Score: 89
Period size: 25 Copynumber: 2.6 Consensus size: 26
3260442 AAGATAAAGA
* *
3260452 TAAAAGAGATTTAATTCCTCTTTTAT
1 TAAAAGAGATTTATTTCCTCCTTTAT
*
3260478 TAAAAGAGA-TTATTTTCTCCTTTAT
1 TAAAAGAGATTTATTTCCTCCTTTAT
*
3260503 TAGAAGAGATTTATT
1 TAAAAGAGATTTATT
3260518 AGCTCGTCCA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 21 0.60
26 14 0.40
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.45
Consensus pattern (26 bp):
TAAAAGAGATTTATTTCCTCCTTTAT
Found at i:3269123 original size:3 final size:3
Alignment explanation
Indices: 3269115--3269174 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
3269105 CTCATAAGAA
3269115 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
3269163 ATT ATT ATT ATT
1 ATT ATT ATT ATT
3269175 CAAATTATAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:3269595 original size:2 final size:2
Alignment explanation
Indices: 3269573--3269623 Score: 68
Period size: 2 Copynumber: 26.0 Consensus size: 2
3269563 CCAAATATTT
* * *
3269573 TA TA CA TA TA TG TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3269615 TA T- TA TA TA
1 TA TA TA TA TA
3269624 GTTTTCTAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:3269742 original size:36 final size:36
Alignment explanation
Indices: 3269637--3269839 Score: 185
Period size: 34 Copynumber: 5.7 Consensus size: 36
3269627 TTCTAAGTAA
3269637 TTTTGAAAACTTATATAATATATAGTTTTTTTTAAAAAAACA-T
1 TTTTGAAAAC-TATATAATATATAG----TTTT---AAAACATT
3269680 TTTTGAAAAC-ATATAATATA-A-TTTTAAAACATT
1 TTTTGAAAACTATATAATATATAGTTTTAAAACATT
*
3269713 TTTTGAAAACTATATAACATATAGTTTTAAAACA-T
1 TTTTGAAAACTATATAATATATAGTTTTAAAACATT
* * *
3269748 TTTT-AAAATTATATAATATATGGTTTTGAAA-ATAT
1 TTTTGAAAACTATATAATATATAGTTTTAAAACAT-T
*
3269783 TTTTG-AAA-TATATTATATATAGTTTTAAAACATT
1 TTTTGAAAACTATATAATATATAGTTTTAAAACATT
* *
3269817 TTTT-TAAA-TATATATTATATAGT
1 TTTTGAAAACTATATAATATATAGT
3269840 ATTTTGTTTT
Statistics
Matches: 141, Mismatches: 10, Indels: 27
0.79 0.06 0.15
Matches are distributed among these distances:
32 6 0.04
33 12 0.09
34 72 0.51
35 20 0.14
36 10 0.07
40 1 0.01
41 10 0.07
43 10 0.07
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (36 bp):
TTTTGAAAACTATATAATATATAGTTTTAAAACATT
Found at i:3269761 original size:34 final size:34
Alignment explanation
Indices: 3269673--3269839 Score: 198
Period size: 34 Copynumber: 4.9 Consensus size: 34
3269663 TTTTTTTAAA
*
3269673 AAAACATTTTTGAAAACATATAATATA-A-TTTT
1 AAAACATTTTTGAAAATATATAATATATAGTTTT
*
3269705 AAAACATTTTTTGAAAACTATATAACATATAGTTTT
1 AAAACA-TTTTTGAAAA-TATATAATATATAGTTTT
*
3269741 AAAACATTTTT-AAAATTATATAATATATGGTTTT
1 AAAACATTTTTGAAAA-TATATAATATATAGTTTT
* *
3269775 GAAAATATTTTTG-AAATATATTATATATAGTTTT
1 -AAAACATTTTTGAAAATATATAATATATAGTTTT
** *
3269809 AAAACATTTTTTTAAATATATATTATATAGT
1 AAAACATTTTTGAAAATATATAATATATAGT
3269840 ATTTTGTTTT
Statistics
Matches: 116, Mismatches: 12, Indels: 12
0.83 0.09 0.09
Matches are distributed among these distances:
32 6 0.05
33 20 0.17
34 61 0.53
35 19 0.16
36 10 0.09
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (34 bp):
AAAACATTTTTGAAAATATATAATATATAGTTTT
Found at i:3269855 original size:11 final size:11
Alignment explanation
Indices: 3269839--3269883 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
3269829 TATTATATAG
*
3269839 TATTTTGTTTT
1 TATTTTATTTT
3269850 TATTTTATTTT
1 TATTTTATTTT
*
3269861 TATTTTTTTGTT
1 TATTTTATT-TT
3269873 TATTATTATTT
1 TATT-TTATTT
3269884 ACTCGTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
11 18 0.62
12 7 0.24
13 4 0.14
ACGTcount: A:0.16, C:0.00, G:0.04, T:0.80
Consensus pattern (11 bp):
TATTTTATTTT
Found at i:3274235 original size:24 final size:24
Alignment explanation
Indices: 3274201--3274258 Score: 53
Period size: 25 Copynumber: 2.3 Consensus size: 24
3274191 TCAATCAGAA
* *
3274201 CAAAAACAAAAGAAAAAAGAAAAGAA
1 CAAAAA-AAAA-ACAAAAGAAAAGAG
**
3274227 GCAAAAAAAAAACAAAAGAAAAGAG
1 CAAAA-AAAAAACAAAAGAAAAGAG
3274252 CAAAAAA
1 CAAAAAA
3274259 GCAAAAATCA
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
24 2 0.08
25 15 0.60
26 7 0.28
27 1 0.04
ACGTcount: A:0.79, C:0.09, G:0.12, T:0.00
Consensus pattern (24 bp):
CAAAAAAAAAACAAAAGAAAAGAG
Found at i:3274238 original size:20 final size:21
Alignment explanation
Indices: 3274207--3274246 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
3274197 AGAACAAAAA
*
3274207 CAAAAGAAAAAAGAAAAGAAG
1 CAAAAGAAAAAACAAAAGAAG
3274228 CAAAA-AAAAAACAAAAGAA
1 CAAAAGAAAAAACAAAAGAA
3274247 AAGAGCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.80, C:0.07, G:0.12, T:0.00
Consensus pattern (21 bp):
CAAAAGAAAAAACAAAAGAAG
Found at i:3274239 original size:32 final size:33
Alignment explanation
Indices: 3274199--3274285 Score: 115
Period size: 32 Copynumber: 2.6 Consensus size: 33
3274189 ATTCAATCAG
3274199 AACAAAAACAAAAGAAAAAAG-AAAAGAAGCAAA
1 AACAAAAACAAAAGAAAAAAGCAAAA-AAGCAAA
*
3274232 AA-AAAAACAAAAGAAAAGAGCAAAAAAGCAAA
1 AACAAAAACAAAAGAAAAAAGCAAAAAAGCAAA
3274264 AATCAAAAATCAAAAAGAAAAA
1 AA-CAAAAA-C-AAAAGAAAAA
3274286 GGGACAAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
32 26 0.55
33 6 0.13
34 5 0.11
35 1 0.02
36 9 0.19
ACGTcount: A:0.78, C:0.09, G:0.10, T:0.02
Consensus pattern (33 bp):
AACAAAAACAAAAGAAAAAAGCAAAAAAGCAAA
Found at i:3274256 original size:8 final size:8
Alignment explanation
Indices: 3274208--3274265 Score: 50
Period size: 8 Copynumber: 7.4 Consensus size: 8
3274198 GAACAAAAAC
3274208 AAAAG-AA
1 AAAAGCAA
3274215 AAAAG-AA
1 AAAAGCAA
3274222 AAGAAGCAA
1 AA-AAGCAA
**
3274231 AAAAAAAA
1 AAAAGCAA
3274239 CAAAAG-AA
1 -AAAAGCAA
*
3274247 AAGAGCAA
1 AAAAGCAA
3274255 AAAAGCAA
1 AAAAGCAA
3274263 AAA
1 AAA
3274266 TCAAAAATCA
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
7 13 0.31
8 21 0.50
9 8 0.19
ACGTcount: A:0.79, C:0.07, G:0.14, T:0.00
Consensus pattern (8 bp):
AAAAGCAA
Found at i:3274285 original size:14 final size:14
Alignment explanation
Indices: 3274208--3274286 Score: 51
Period size: 14 Copynumber: 5.9 Consensus size: 14
3274198 GAACAAAAAC
*
3274208 AAAAGAAAAAAGAA
1 AAAAGCAAAAAGAA
3274222 AAGAAGC-AAAA-AA
1 AA-AAGCAAAAAGAA
3274235 AAAA-C-AAAAGAA
1 AAAAGCAAAAAGAA
* *
3274247 AAGAGCAAAAAAGCA
1 AAAAGC-AAAAAGAA
* **
3274262 AAAATCAAAAATCA
1 AAAAGCAAAAAGAA
3274276 AAAAG-AAAAAG
1 AAAAGCAAAAAG
3274287 GGACAAAAAG
Statistics
Matches: 52, Mismatches: 8, Indels: 11
0.73 0.11 0.15
Matches are distributed among these distances:
11 5 0.10
12 7 0.13
13 10 0.19
14 17 0.33
15 13 0.25
ACGTcount: A:0.77, C:0.08, G:0.13, T:0.03
Consensus pattern (14 bp):
AAAAGCAAAAAGAA
Found at i:3275997 original size:106 final size:106
Alignment explanation
Indices: 3275868--3277138 Score: 1948
Period size: 106 Copynumber: 12.0 Consensus size: 106
3275858 ATATCGTGCC
* * * *
3275868 ACTCTAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAGCAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
*
3275933 AATTTCAGAGCCAATTTCAACTTCACAGCAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
3275974 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAACAAACAACTTT-T
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA-TTTCC
*
3276038 CAATTTCAGAGCCAATTTCAACTTCACAGCGAATGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
3276080 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
*
3276145 AATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
3276186 AATCAAGACAACGCAAGTTCAACTTCACGACAAAGGGACCGCTGGTTGTCAACAAACAATTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* *
3276251 AATTTTAGAGCTAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
3276292 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
*
3276357 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
3276398 ACTCCAGACAACGCAAGTTCAACATCATGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
3276463 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
3276504 ACTCCAGACAACGCAAGTTCAACTTCACGACGAATGGACCGCTGGTTGTCAACAAACAATTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* *
3276569 AATTTCAGAGCTAATTTCAACTTCACAGCGAAGGATATTAG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
3276610 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
3276675 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
3276716 ACTCCAGACAACGCAAGTTCAACTTCACGAGGAAGGGACTGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
3276781 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
3276822 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* *
3276887 AATTTCAGAGCCAAGTTTCAACTTCTCAGCGAAGGATCTTGG
66 AATTTCAGAGCCAA-TTTCAACTTCACAGCGAAGGATATTGG
* ** * * *
3276929 AC-CCAAGACAACACAAACTCAACTTCACGACGAAGGGGCGGCTGATTGTCAAC-AA-AATTT--
1 ACTCC-AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCC
* * *
3276989 C-A-TTCAGAGTCAATTTTAACTTCACAGCGAAGGATATTAG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * ** *
3277029 ACTCGAGACAACACAAGTTCAACTTCATAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* * *
3277094 GATTCCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
3277135 ACTC
1 ACTC
3277139 GGAACAATAC
Statistics
Matches: 1069, Mismatches: 84, Indels: 24
0.91 0.07 0.02
Matches are distributed among these distances:
100 67 0.06
101 13 0.01
102 6 0.01
103 1 0.00
104 1 0.00
105 8 0.01
106 902 0.84
107 71 0.07
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:3277958 original size:2 final size:2
Alignment explanation
Indices: 3277953--3277985 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
3277943 TACATATACG
3277953 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3277986 GTTTTCTAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3278105 original size:36 final size:35
Alignment explanation
Indices: 3278036--3278203 Score: 179
Period size: 34 Copynumber: 4.9 Consensus size: 35
3278026 TTTTTTTAAA
*
3278036 AAAACATTTTTGAAAAC-ATATAATATA-A-TTTT
1 AAAACATTTTTTAAAACTATATAATATATAGTTTT
*
3278068 AAAACATTTTTTAAAAACTATATAACATATAGTTTT
1 AAAACATTTTTT-AAAACTATATAATATATAGTTTT
* *
3278104 AAAACA-TTTTTAAAATTATATAATATATGGTTTT
1 AAAACATTTTTTAAAACTATATAATATATAGTTTT
* * *
3278138 GAAAATATTTGTT-AAA-TATATTATATATAGTTTT
1 -AAAACATTTTTTAAAACTATATAATATATAGTTTT
* *
3278172 AAAACATTTTTTTTAAA-TATATATTATATAGT
1 AAAACA-TTTTTTAAAACTATATAATATATAGT
3278204 ATTTTGTTTT
Statistics
Matches: 115, Mismatches: 13, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
32 11 0.10
33 10 0.09
34 50 0.43
35 30 0.26
36 14 0.12
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (35 bp):
AAAACATTTTTTAAAACTATATAATATATAGTTTT
Found at i:3280635 original size:27 final size:28
Alignment explanation
Indices: 3280591--3280644 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 28
3280581 AATAGTTTTC
**
3280591 ATTTTCAGTTTTTTATTTCTAGAAAATA
1 ATTTTCAGTTTTCAATTTCTAGAAAATA
* *
3280619 ATTTTCA-TTTTCAATTTTTTGAAAAT
1 ATTTTCAGTTTTCAATTTCTAGAAAAT
3280645 TAGAAAACAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.31, C:0.07, G:0.06, T:0.56
Consensus pattern (28 bp):
ATTTTCAGTTTTCAATTTCTAGAAAATA
Found at i:3287081 original size:8 final size:8
Alignment explanation
Indices: 3287042--3287080 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
3287032 AGTATTAAGT
3287042 AATA-ATA
1 AATATATA
3287049 AATATATA
1 AATATATA
*
3287057 AATAAATA
1 AATATATA
3287065 AATATATA
1 AATATATA
*
3287073 TATATATA
1 AATATATA
3287081 TTTAAAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
7 4 0.14
8 24 0.86
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
AATATATA
Found at i:3288346 original size:7 final size:7
Alignment explanation
Indices: 3288336--3288360 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
3288326 TATTAAATTA
3288336 TAAACCC
1 TAAACCC
3288343 TAAACCC
1 TAAACCC
3288350 TAAACCC
1 TAAACCC
3288357 TAAA
1 TAAA
3288361 TTATACTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAACCC
Found at i:3290572 original size:21 final size:21
Alignment explanation
Indices: 3290548--3290715 Score: 193
Period size: 21 Copynumber: 8.0 Consensus size: 21
3290538 GATTCGCAGC
*
3290548 GCGAACTTCGAATATCGCAAT
1 GCGAACTTCGACTATCGCAAT
3290569 GCGAACTTCGACTATCGCAAT
1 GCGAACTTCGACTATCGCAAT
*
3290590 GCGAACTTGGACTATCGCAAT
1 GCGAACTTCGACTATCGCAAT
*
3290611 GCGAA-TAT-GTA-AATCGCAAT
1 GCGAACT-TCG-ACTATCGCAAT
*
3290631 GCGATAGTT-GACTATCGCAAT
1 GCGA-ACTTCGACTATCGCAAT
* *
3290652 GCGAACTTGGACTATCGCAAC
1 GCGAACTTCGACTATCGCAAT
*
3290673 GCGAACTTTGACTATCGCAAT
1 GCGAACTTCGACTATCGCAAT
*
3290694 GCGATA-GTCGACTATCGCAAT
1 GCGA-ACTTCGACTATCGCAAT
3290715 G
1 G
3290716 TGAATATGTA
Statistics
Matches: 130, Mismatches: 10, Indels: 14
0.84 0.06 0.09
Matches are distributed among these distances:
20 18 0.14
21 110 0.85
22 2 0.02
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.24
Consensus pattern (21 bp):
GCGAACTTCGACTATCGCAAT
Found at i:3290677 original size:104 final size:104
Alignment explanation
Indices: 3290548--3290742 Score: 311
Period size: 104 Copynumber: 1.9 Consensus size: 104
3290538 GATTCGCAGC
* * *
3290548 GCGAACTTCGAATATCGCAATGCGAACTTCGACTATCGCAATGCGA-ACTTGGACTATCGCAATG
1 GCGAACTTCGAATATCGCAACGCGAACTTCGACTATCGCAATGCGATA-GTCGACTATCGCAATG
3290612 CGAATATGTAAATCGCAATGCGATAGTTGACTATCGCAAT
65 CGAATATGTAAATCGCAATGCGATAGTTGACTATCGCAAT
* * * *
3290652 GCGAACTTGGACTATCGCAACGCGAACTTTGACTATCGCAATGCGATAGTCGACTATCGCAATGT
1 GCGAACTTCGAATATCGCAACGCGAACTTCGACTATCGCAATGCGATAGTCGACTATCGCAATGC
3290717 GAATATGTAAATCGCAATGCGATAGT
66 GAATATGTAAATCGCAATGCGATAGT
3290743 CGAAGTTCGC
Statistics
Matches: 83, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
104 82 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (104 bp):
GCGAACTTCGAATATCGCAACGCGAACTTCGACTATCGCAATGCGATAGTCGACTATCGCAATGC
GAATATGTAAATCGCAATGCGATAGTTGACTATCGCAAT
Found at i:3290889 original size:6 final size:6
Alignment explanation
Indices: 3290878--3290941 Score: 93
Period size: 6 Copynumber: 11.5 Consensus size: 6
3290868 GACACGTATT
3290878 ACCACG ACCACG A-C-C- ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
3290923 ACCACG ACC-CG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACC
3290942 CGAGACGAAC
Statistics
Matches: 55, Mismatches: 0, Indels: 7
0.89 0.00 0.11
Matches are distributed among these distances:
3 1 0.02
4 2 0.04
5 12 0.22
6 40 0.73
ACGTcount: A:0.31, C:0.53, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:3290898 original size:15 final size:15
Alignment explanation
Indices: 3290878--3290927 Score: 73
Period size: 15 Copynumber: 3.1 Consensus size: 15
3290868 GACACGTATT
3290878 ACCACGACCACGACC
1 ACCACGACCACGACC
3290893 ACCACGACCACGACCAC
1 ACCACGACCACGA-C-C
3290910 GACCACGACCACGACC
1 -ACCACGACCACGACC
3290926 AC
1 AC
3290928 GACCCGACCC
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
15 15 0.47
16 2 0.06
17 2 0.06
18 13 0.41
ACGTcount: A:0.34, C:0.52, G:0.14, T:0.00
Consensus pattern (15 bp):
ACCACGACCACGACC
Found at i:3291097 original size:39 final size:39
Alignment explanation
Indices: 3291043--3291138 Score: 183
Period size: 39 Copynumber: 2.5 Consensus size: 39
3291033 TTCTCAATAG
3291043 TGTTTCCAATACTATGTGGGATTGAGCATTACCAACACT
1 TGTTTCCAATACTATGTGGGATTGAGCATTACCAACACT
3291082 TGTTTCCAATACTATGTGGGATTGAGCATTACCAACACT
1 TGTTTCCAATACTATGTGGGATTGAGCATTACCAACACT
*
3291121 TGTTTCCAATACAATGTG
1 TGTTTCCAATACTATGTG
3291139 ATTATTCAGG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (39 bp):
TGTTTCCAATACTATGTGGGATTGAGCATTACCAACACT
Found at i:3291499 original size:6 final size:6
Alignment explanation
Indices: 3291478--3291535 Score: 84
Period size: 6 Copynumber: 10.0 Consensus size: 6
3291468 TCTCGTCTCG
* *
3291478 GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTTGT GGTAGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
3291524 GGTCGT GGTCGT
1 GGTCGT GGTCGT
3291536 AGTAATACGT
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
5 10 0.20
6 39 0.80
ACGTcount: A:0.02, C:0.14, G:0.52, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:3291680 original size:21 final size:21
Alignment explanation
Indices: 3291628--3291771 Score: 127
Period size: 21 Copynumber: 6.9 Consensus size: 21
3291618 CGTTGCGATA
*
3291628 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAATGCGAAC
* *
3291647 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAATGCGAAC
3291670 TTGGACTATCGCAATGCGAA-
1 TTGGACTATCGCAATGCGAAC
**
3291690 TAT-GAAAATCGCAATGCGATA-
1 T-TGGACTATCGCAATGCGA-AC
*
3291711 TTCGACTATCGCAATGCGAAC
1 TTGGACTATCGCAATGCGAAC
* *
3291732 TTGGACTATCACAACGCGAAC
1 TTGGACTATCGCAATGCGAAC
* *
3291753 TTCGACTATCGCATTGCGA
1 TTGGACTATCGCAATGCGA
3291772 TTTACATATT
Statistics
Matches: 102, Mismatches: 15, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
19 6 0.06
20 17 0.17
21 69 0.68
23 10 0.10
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.24
Consensus pattern (21 bp):
TTGGACTATCGCAATGCGAAC
Found at i:3291719 original size:83 final size:82
Alignment explanation
Indices: 3291621--3291806 Score: 216
Period size: 83 Copynumber: 2.2 Consensus size: 82
3291611 CACCAATCGT
* * * *
3291621 TGCGATATTGGACTATCGCAA-CGAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAAT
1 TGCGATATTCGACTATCGCAAGCGAACTTGGAAT--ATCACAACGCGAACTTCGACTATCGCAAT
3291685 GCGAATATGA-A-AATCGCAA
64 GCG-AT-TGACATAATCGCAA
* *
3291704 TGCGATATTCGACTATCGCAATGCGAACTTGGACTATCACAACGCGAACTTCGACTATCGCATTG
1 TGCGATATTCGACTATCGCAA-GCGAACTTGGAATATCACAACGCGAACTTCGACTATCGCAATG
* * *
3291769 CGATTTACATATTCGCAT
65 CGATTGACATAATCGCAA
*
3291787 TGCGATAGTCGACTATCGCA
1 TGCGATATTCGACTATCGCA
3291807 TTGCGATTTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
81 2 0.02
82 3 0.03
83 74 0.83
85 10 0.11
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (82 bp):
TGCGATATTCGACTATCGCAAGCGAACTTGGAATATCACAACGCGAACTTCGACTATCGCAATGC
GATTGACATAATCGCAA
Found at i:3291807 original size:21 final size:21
Alignment explanation
Indices: 3291697--3291964 Score: 152
Period size: 21 Copynumber: 12.9 Consensus size: 21
3291687 GAATATGAAA
* *
3291697 ATCGCAATGCGATATTCGACT
1 ATCGCATTGCGATAGTCGACT
* * *
3291718 ATCGCAATGCGA-ACTTGGACT
1 ATCGCATTGCGATA-GTCGACT
* ** *
3291739 ATCACAACGCGA-ACTTCGACT
1 ATCGCATTGCGATA-GTCGACT
*
3291760 ATCGCATTGCGAT--T-TACAT
1 ATCGCATTGCGATAGTCGAC-T
3291779 ATTCGCATTGCGATAGTCGACT
1 A-TCGCATTGCGATAGTCGACT
*
3291801 ATCGCATTGCGAT--T-TACAT
1 ATCGCATTGCGATAGTCGAC-T
*
3291820 ATTCGCATTGCGATAGTCGAAGT
1 A-TCGCATTGCGATAGTCG-ACT
* * *
3291843 -TCGCGTTGCGATAGTCCAAGT
1 ATCGCATTGCGATAGT-CGACT
3291864 -TCGCATTGCGATAGTCGACT
1 ATCGCATTGCGATAGTCGACT
*
3291884 ATCGCATTGCGAT--T-TACAT
1 ATCGCATTGCGATAGTCGAC-T
* *
3291903 ATTCGCATTGCGATAGTCCAAGT
1 A-TCGCATTGCGATAGT-CGACT
*
3291926 -TCGCATTGCGATAGTCGAAGT
1 ATCGCATTGCGATAGTCG-ACT
3291947 -TCGCATTGCGATAGTCGA
1 ATCGCATTGCGATAGTCGA
3291965 AGTTCGCGTT
Statistics
Matches: 204, Mismatches: 21, Indels: 45
0.76 0.08 0.17
Matches are distributed among these distances:
18 6 0.03
19 9 0.04
20 42 0.21
21 135 0.66
22 6 0.03
23 4 0.02
24 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (21 bp):
ATCGCATTGCGATAGTCGACT
Found at i:3291813 original size:41 final size:41
Alignment explanation
Indices: 3291754--3291964 Score: 261
Period size: 41 Copynumber: 5.1 Consensus size: 41
3291744 AACGCGAACT
3291754 TCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAG
1 TCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAG
3291795 TCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAG
1 TCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAG
* * * *
3291836 TCGAAGT-TCGCGTTGCGATAGTCCA-AGTTCGCATTGCGATAG
1 TCG-ACTATCGCATTGCGAT-TTACATA-TTCGCATTGCGATAG
3291878 TCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAG
1 TCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAG
* * *
3291919 TCCAAGT-TCGCATTGCGATAGT-CGA-AGTTCGCATTGCGATAG
1 T-CGACTATCGCATTGCGAT-TTAC-ATA-TTCGCATTGCGATAG
3291961 TCGA
1 TCGA
3291965 AGTTCGCGTT
Statistics
Matches: 149, Mismatches: 12, Indels: 18
0.83 0.07 0.10
Matches are distributed among these distances:
41 93 0.62
42 56 0.38
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.32
Consensus pattern (41 bp):
TCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAG
Found at i:3291867 original size:83 final size:83
Alignment explanation
Indices: 3291780--3291964 Score: 343
Period size: 83 Copynumber: 2.2 Consensus size: 83
3291770 GATTTACATA
*
3291780 TTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCGAAGTTC
1 TTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTC
*
3291845 GCGTTGCGATAGTCCAAG
66 GCATTGCGATAGTCCAAG
3291863 TTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTC
1 TTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTC
*
3291928 GCATTGCGATAGTCGAAG
66 GCATTGCGATAGTCCAAG
3291946 TTCGCATTGCGATAGTCGA
1 TTCGCATTGCGATAGTCGA
3291965 AGTTCGCGTT
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
83 99 1.00
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (83 bp):
TTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTC
GCATTGCGATAGTCCAAG
Found at i:3291965 original size:21 final size:21
Alignment explanation
Indices: 3291780--3291976 Score: 212
Period size: 21 Copynumber: 9.5 Consensus size: 21
3291770 GATTTACATA
*
3291780 TTCGCATTGCGATAGTCG-AC
1 TTCGCATTGCGATAGTCGAAG
*
3291800 TATCGCATTGCGAT-TTAC-ATA-
1 T-TCGCATTGCGATAGT-CGA-AG
3291821 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCGAAG
* *
3291842 TTCGCGTTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCGAAG
*
3291863 TTCGCATTGCGATAGTCG-AC
1 TTCGCATTGCGATAGTCGAAG
*
3291883 TATCGCATTGCGAT-TTAC-ATA-
1 T-TCGCATTGCGATAGT-CGA-AG
*
3291904 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCGAAG
3291925 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCGAAG
3291946 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCGAAG
*
3291967 TTCGCGTTGC
1 TTCGCATTGC
3291977 AAATCTGGAA
Statistics
Matches: 152, Mismatches: 11, Indels: 27
0.80 0.06 0.14
Matches are distributed among these distances:
20 33 0.22
21 117 0.77
22 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.31
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCGAAG
Found at i:3295819 original size:57 final size:56
Alignment explanation
Indices: 3295758--3295866 Score: 139
Period size: 56 Copynumber: 1.9 Consensus size: 56
3295748 GATGCACTTA
*
3295758 CCATGCACCGATGCACTAAGGAT-TTTATGAAAACATCGAACGCATTTGATGCACCAG
1 CCATGCACCGATGCACTAAGGATATTT-TG-AAACATCGAACGCACTTGATGCACCAG
* ** * *
3295815 CCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACTTGATGCA
1 CCATGCACCGATGCACTAAGGATATTTTGAAACATCGAACGCACTTGATGCA
3295867 TCGATGCACT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
56 21 0.47
57 21 0.47
58 3 0.07
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (56 bp):
CCATGCACCGATGCACTAAGGATATTTTGAAACATCGAACGCACTTGATGCACCAG
Found at i:3297402 original size:40 final size:40
Alignment explanation
Indices: 3297266--3297402 Score: 147
Period size: 40 Copynumber: 3.4 Consensus size: 40
3297256 ACAGGTTCCA
** * *
3297266 AAATCGCAACGTGAATTGGTAAATCGCAACAATAATATGT
1 AAATCGCAACACGAATAGGTAAATCGCAACGATAATATGT
**
3297306 AAATCGCAACACGAA-A-GTCAAATTCGCAACGCGAA-A-GT
1 AAATCGCAACACGAATAGGT-AAA-TCGCAACGATAATATGT
3297344 CAAATTCGCAACACGAATAGGTAAATCGCAACGATAATATGT
1 -AAA-TCGCAACACGAATAGGTAAATCGCAACGATAATATGT
*
3297386 AAATCGCAACGCGAATA
1 AAATCGCAACACGAATA
3297403 TTATTTTCGA
Statistics
Matches: 80, Mismatches: 9, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
38 4 0.05
39 7 0.09
40 57 0.71
41 8 0.10
42 4 0.05
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.19
Consensus pattern (40 bp):
AAATCGCAACACGAATAGGTAAATCGCAACGATAATATGT
Found at i:3297403 original size:20 final size:20
Alignment explanation
Indices: 3297266--3297403 Score: 115
Period size: 20 Copynumber: 6.9 Consensus size: 20
3297256 ACAGGTTCCA
*
3297266 AAATCGCAACGTGAAT-TGGT
1 AAATCGCAACGCGAATAT-GT
***
3297286 AAATCGCAACAATAATATGT
1 AAATCGCAACGCGAATATGT
*
3297306 AAATCGCAACACGAA-A-GT
1 AAATCGCAACGCGAATATGT
3297324 CAAATTCGCAACGCGAA-A-GT
1 -AAA-TCGCAACGCGAATATGT
* *
3297344 CAAATTCGCAACACGAATAGGT
1 -AAA-TCGCAACGCGAATATGT
**
3297366 AAATCGCAACGATAATATGT
1 AAATCGCAACGCGAATATGT
3297386 AAATCGCAACGCGAATAT
1 AAATCGCAACGCGAATAT
3297404 TATTTTCGAA
Statistics
Matches: 100, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
18 2 0.02
19 4 0.04
20 87 0.87
21 5 0.05
22 2 0.02
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGAATATGT
Found at i:3297676 original size:18 final size:18
Alignment explanation
Indices: 3297653--3297690 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
3297643 GAGGGTTAGT
3297653 TTTTTTAATTATTTT-TTA
1 TTTTTT-ATTATTTTATTA
*
3297671 TTTTTTATTTTTTTATTA
1 TTTTTTATTATTTTATTA
3297689 TT
1 TT
3297691 ATTAGATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTTTATTATTTTATTA
Found at i:3297922 original size:20 final size:20
Alignment explanation
Indices: 3297899--3297945 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
3297889 AAACTTAAAT
*
3297899 TCGCAACATGAAAATGAAAA
1 TCGCAACACGAAAATGAAAA
**
3297919 TCGCAATGCGAAAATGAAAA
1 TCGCAACACGAAAATGAAAA
3297939 TCGCAAC
1 TCGCAAC
3297946 GTTGCGAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.49, C:0.19, G:0.17, T:0.15
Consensus pattern (20 bp):
TCGCAACACGAAAATGAAAA
Found at i:3297955 original size:23 final size:20
Alignment explanation
Indices: 3297908--3297960 Score: 79
Period size: 20 Copynumber: 2.5 Consensus size: 20
3297898 TTCGCAACAT
3297908 GAAAATGAAAATCGCAATGC
1 GAAAATGAAAATCGCAATGC
3297928 GAAAATGAAAATCGCAACGTTGC
1 GAAAATGAAAATCGCAA---TGC
3297951 GAAAATGAAA
1 GAAAATGAAA
3297961 TTTGCGTTGC
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 17 0.57
23 13 0.43
ACGTcount: A:0.51, C:0.13, G:0.21, T:0.15
Consensus pattern (20 bp):
GAAAATGAAAATCGCAATGC
Found at i:3298022 original size:39 final size:37
Alignment explanation
Indices: 3297960--3298039 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 37
3297950 CGAAAATGAA
3297960 ATTTGCGTTGCGATTTTCATTTCGCGTTGCGATTTTC
1 ATTTGCGTTGCGATTTTCATTTCGCGTTGCGATTTTC
*
3297997 ATTTCGCGTTGCGATTTTCATTTTCGCGTTGCGATTTTT
1 ATTT-GCGTTGCGATTTTCA-TTTCGCGTTGCGATTTTC
3298036 ATTT
1 ATTT
3298040 TCAGAAACTA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
37 4 0.10
38 15 0.38
39 21 0.52
ACGTcount: A:0.11, C:0.17, G:0.20, T:0.51
Consensus pattern (37 bp):
ATTTGCGTTGCGATTTTCATTTCGCGTTGCGATTTTC
Found at i:3298041 original size:20 final size:19
Alignment explanation
Indices: 3297960--3298039 Score: 135
Period size: 19 Copynumber: 4.2 Consensus size: 19
3297950 CGAAAATGAA
3297960 ATTT-GCGTTGCGATTTTC
1 ATTTCGCGTTGCGATTTTC
3297978 ATTTCGCGTTGCGATTTTC
1 ATTTCGCGTTGCGATTTTC
3297997 ATTTCGCGTTGCGATTTTC
1 ATTTCGCGTTGCGATTTTC
*
3298016 ATTTTCGCGTTGCGATTTTT
1 A-TTTCGCGTTGCGATTTTC
3298036 ATTT
1 ATTT
3298040 TCAGAAACTA
Statistics
Matches: 59, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
18 4 0.07
19 37 0.63
20 18 0.31
ACGTcount: A:0.11, C:0.17, G:0.20, T:0.51
Consensus pattern (19 bp):
ATTTCGCGTTGCGATTTTC
Found at i:3299737 original size:21 final size:21
Alignment explanation
Indices: 3299711--3299751 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
3299701 GTTATGTAAT
*
3299711 GAGGTCAATGCTTTACGTGAA
1 GAGGTCAATACTTTACGTGAA
**
3299732 GAGGTCGGTACTTTACGTGA
1 GAGGTCAATACTTTACGTGA
3299752 CGATAATTGT
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:0.24, C:0.15, G:0.32, T:0.29
Consensus pattern (21 bp):
GAGGTCAATACTTTACGTGAA
Found at i:3299791 original size:21 final size:21
Alignment explanation
Indices: 3299767--3299817 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
3299757 ATTGTGCAGG
*
3299767 ACGTGATGAGGT-GTGGTCTTT
1 ACGTGATGAGGTAGAGGT-TTT
*
3299788 ACGTGGTGAGGTAGAGGTTTT
1 ACGTGATGAGGTAGAGGTTTT
*
3299809 ACGCGATGA
1 ACGTGATGA
3299818 CAATGATGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.20, C:0.10, G:0.39, T:0.31
Consensus pattern (21 bp):
ACGTGATGAGGTAGAGGTTTT
Found at i:3300187 original size:21 final size:21
Alignment explanation
Indices: 3300161--3300266 Score: 103
Period size: 21 Copynumber: 5.0 Consensus size: 21
3300151 AGCACCTGTC
*
3300161 ATCGTTCAAGAGGCCTCTCCT
1 ATCGTTCAAGAGGCCCCTCCT
*
3300182 ATCGTTCAAGAGGCCCCT-AT
1 ATCGTTCAAGAGGCCCCTCCT
*
3300202 CATCCTTCAAGAGGCCCCTCAC-
1 -ATCGTTCAAGAGGCCCCTC-CT
*
3300224 A-CAGTTCAAGAGGCCCCT-GT
1 ATC-GTTCAAGAGGCCCCTCCT
*
3300244 CATCGTTCAAGAGGTCCCTCCT
1 -ATCGTTCAAGAGGCCCCTCCT
3300266 A
1 A
3300267 CAGTTCGAGA
Statistics
Matches: 69, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
20 2 0.03
21 65 0.94
22 2 0.03
ACGTcount: A:0.23, C:0.35, G:0.19, T:0.24
Consensus pattern (21 bp):
ATCGTTCAAGAGGCCCCTCCT
Found at i:3300211 original size:42 final size:41
Alignment explanation
Indices: 3300159--3300277 Score: 152
Period size: 42 Copynumber: 2.8 Consensus size: 41
3300149 GAAGCACCTG
3300159 TCATCGTTCAAGAGGCCTCTCCTATC-GTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCC-CTCCTA-CAGTTCAAGAGGCCCCTA
* *
3300201 TCATCCTTCAAGAGGCCCCTCAC-ACAGTTCAAGAGGCCCCTG
1 TCATCGTTCAAGAGG-CCCTC-CTACAGTTCAAGAGGCCCCTA
*
3300243 TCATCGTTCAAGAGGTCCCTCCTACAGTTCGAGAG
1 TCATCGTTCAAGAGG-CCCTCCTACAGTTCAAGAG
3300278 CCCGATTCAC
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
41 2 0.03
42 63 0.93
43 3 0.04
ACGTcount: A:0.23, C:0.34, G:0.20, T:0.24
Consensus pattern (41 bp):
TCATCGTTCAAGAGGCCCTCCTACAGTTCAAGAGGCCCCTA
Found at i:3301698 original size:64 final size:64
Alignment explanation
Indices: 3301623--3301798 Score: 307
Period size: 64 Copynumber: 2.8 Consensus size: 64
3301613 GGGTACACTT
3301623 TTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAACAATTA
1 TTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAACAATTA
* * ***
3301687 TTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTCTTA
1 TTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAACAATTA
3301751 TTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGAT
1 TTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGAT
3301799 TTGTTGTTTG
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 107 1.00
ACGTcount: A:0.27, C:0.03, G:0.16, T:0.53
Consensus pattern (64 bp):
TTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAACAATTA
Found at i:3301883 original size:20 final size:20
Alignment explanation
Indices: 3301858--3301896 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
3301848 AGGTACACTT
*
3301858 TCGCAACGCGAAAGTCAAAA
1 TCGCAACACGAAAGTCAAAA
3301878 TCGCAACACGAAAGTCAAA
1 TCGCAACACGAAAGTCAAA
3301897 TTAGCGTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.26, G:0.18, T:0.10
Consensus pattern (20 bp):
TCGCAACACGAAAGTCAAAA
Found at i:3301926 original size:20 final size:20
Alignment explanation
Indices: 3301901--3301965 Score: 112
Period size: 20 Copynumber: 3.2 Consensus size: 20
3301891 GTCAAATTAG
3301901 CGTTGCGATTTTGACTTTCA
1 CGTTGCGATTTTGACTTTCA
*
3301921 CGTTGCGAATTTGACTTTCA
1 CGTTGCGATTTTGACTTTCA
*
3301941 CGTTGCGATTTTGACTTTCG
1 CGTTGCGATTTTGACTTTCA
3301961 CGTTG
1 CGTTG
3301966 TGAATTCAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.14, C:0.20, G:0.23, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTTTGACTTTCA
Found at i:3302140 original size:20 final size:20
Alignment explanation
Indices: 3302115--3302195 Score: 135
Period size: 20 Copynumber: 4.0 Consensus size: 20
3302105 TACACTTTCA
3302115 CAACGCGAAAGTCAAATTCG
1 CAACGCGAAAGTCAAATTCG
3302135 CAACGCGAAAGTCAAATTCG
1 CAACGCGAAAGTCAAATTCG
* *
3302155 CAACACGAAAGTCAAAATCG
1 CAACGCGAAAGTCAAATTCG
*
3302175 CAACGCAAAAGTCAAATTCG
1 CAACGCGAAAGTCAAATTCG
3302195 C
1 C
3302196 GTTGCGCTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 56 1.00
ACGTcount: A:0.43, C:0.26, G:0.17, T:0.14
Consensus pattern (20 bp):
CAACGCGAAAGTCAAATTCG
Found at i:3302426 original size:304 final size:295
Alignment explanation
Indices: 3301857--3302468 Score: 877
Period size: 304 Copynumber: 2.0 Consensus size: 295
3301847 AAGGTACACT
*
3301857 TTCGCAACGCGAAAGTCAAAATCGCAACACGAAAGTCAAATTAGCGTTGCGATTTTGACTTTCAC
1 TTCGCAACGCGAAAGTCAAAATCGCAACACAAAAGTCAAATTAGCGTTGCGATTTTGACTTTCAC
* * * *
3301922 GTTGCGAATTTGACTTTCACGTTGCGATTTTGACTTTCGCGTTGTGAATTCAAGGAAAACACCTT
66 GTTGCGAATTTGACTTTCACATTGAGAATTTGACTTTCGCGTTGCGAATTCAAGGAAAACACCTT
** * * *
3301987 TTAAAAAAATATATCAGACAACAATATGATAAGTGTAAATAAGAATTATTTTTTTGTTTAATTGA
131 CAAAAAAAAGATAACAGACAACAATATGATAAGTGTAAATAAGAATTATTTTTTTGTTTAATTAA
* *
3302052 TTTGTTGTTTAATTTCACTATGTATTATGTTTAAGGCAAAAAAGACCAGAAGGTACACTTTCACA
196 TTTGTTGTTTAATTTCACTATGCATTATGTTGAAGGCAAAAAAGACCAGAAGGTACACTTTCACA
*
3302117 ACGCGAAAGTCAAATTCGCAACGCGAAAGTC-AAA
261 ACGCGAAAGTCAAAATCGCAACGCGAAAGTCAAAA
* * * *
3302151 TTCGCAACACGAAAGTCAAAATCGCAACGCAAAAGTCAAATTCGCGTTGCGCTTTTGACTTTCAC
1 TTCGCAACGCGAAAGTCAAAATCGCAACACAAAAGTCAAATTAGCGTTGCGATTTTGACTTTCAC
* * *
3302216 GTTGTGAATTTGTCTTTCTAAACAATCACAATGAGAATTTGATTTTCGCGTTGCGAATTCAAGGA
66 GTTGCGAATTTGACTTTC---AC-AT-----TGAGAATTTGACTTTCGCGTTGCGAATTCAAGGA
* *
3302281 AAACACCTTCAAAAAAAAGATAACAGACAACAATCTGATAAGTGTAAATAAGAATTGTTTTTTTT
122 AAACACCTTCAAAAAAAAGATAACAGACAACAATATGATAAGTGTAAATAAGAATT-ATTTTTTT
* *
3302346 GTTTAATTAATTTGTTGTTTAATTTCACTCTGCATTATGTTGAAGGTAAAAAAGACCAGAAGGTA
186 GTTTAATTAATTTGTTGTTTAATTTCACTATGCATTATGTTGAAGGCAAAAAAGACCAGAAGGTA
* * *
3302411 CACTTTCGCAACGCGAAAGTCAAAATCTCAACGTGAAAGTCAAAA
251 CACTTTCACAACGCGAAAGTCAAAATCGCAACGCGAAAGTCAAAA
3302456 TT-GCAACGCGAAA
1 TTCGCAACGCGAAA
3302469 ATCGCAACGC
Statistics
Matches: 279, Mismatches: 28, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
294 76 0.27
297 2 0.01
298 1 0.00
303 81 0.29
304 114 0.41
305 5 0.02
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.31
Consensus pattern (295 bp):
TTCGCAACGCGAAAGTCAAAATCGCAACACAAAAGTCAAATTAGCGTTGCGATTTTGACTTTCAC
GTTGCGAATTTGACTTTCACATTGAGAATTTGACTTTCGCGTTGCGAATTCAAGGAAAACACCTT
CAAAAAAAAGATAACAGACAACAATATGATAAGTGTAAATAAGAATTATTTTTTTGTTTAATTAA
TTTGTTGTTTAATTTCACTATGCATTATGTTGAAGGCAAAAAAGACCAGAAGGTACACTTTCACA
ACGCGAAAGTCAAAATCGCAACGCGAAAGTCAAAA
Found at i:3302448 original size:20 final size:20
Alignment explanation
Indices: 3302419--3302468 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
3302409 TACACTTTCG
3302419 CAACGCGAAAGTCAAAATCT
1 CAACGCGAAAGTCAAAATCT
*
3302439 CAACGTGAAAGTCAAAAT-T
1 CAACGCGAAAGTCAAAATCT
3302458 GCAACGCGAAA
1 -CAACGCGAAA
3302469 ATCGCAACGC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.46, C:0.22, G:0.18, T:0.14
Consensus pattern (20 bp):
CAACGCGAAAGTCAAAATCT
Found at i:3302475 original size:14 final size:14
Alignment explanation
Indices: 3302452--3302481 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3302442 CGTGAAAGTC
*
3302452 AAAATTGCAACGCG
1 AAAATCGCAACGCG
3302466 AAAATCGCAACGCG
1 AAAATCGCAACGCG
3302480 AA
1 AA
3302482 TTTGACTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.23, G:0.20, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGCG
Found at i:3302502 original size:20 final size:20
Alignment explanation
Indices: 3302479--3302517 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
3302469 ATCGCAACGC
3302479 GAATTTGACTTTCGCGTTGT
1 GAATTTGACTTTCGCGTTGT
3302499 GAATTTGACTTTCGCGTTG
1 GAATTTGACTTTCGCGTTG
3302518 CGATTTCAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.15, G:0.26, T:0.44
Consensus pattern (20 bp):
GAATTTGACTTTCGCGTTGT
Found at i:3305057 original size:24 final size:24
Alignment explanation
Indices: 3305019--3305072 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
3305009 CTGAAACATC
*
3305019 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCAAGTATTGACCAAG
* *
3305043 ATCAAAGTCCAAGTATTGACTAAG
1 ATCAAAATCCAAGTATTGACCAAG
3305067 ATCAAA
1 ATCAAA
3305073 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCAAGTATTGACCAAG
Found at i:3305219 original size:12 final size:12
Alignment explanation
Indices: 3305198--3305231 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
3305188 GGTTGTGGGT
*
3305198 TTTGAGATTGTG
1 TTTGATATTGTG
3305210 TTTGATATTGTG
1 TTTGATATTGTG
*
3305222 TTTGGTATTG
1 TTTGATATTG
3305232 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:3305859 original size:14 final size:15
Alignment explanation
Indices: 3305823--3305860 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
3305813 GAAATCATTG
3305823 AAAAATTATATAGAA
1 AAAAATTATATAGAA
*
3305838 ATAAAATTATGTA-AA
1 A-AAAATTATATAGAA
3305853 AAAAATTA
1 AAAAATTA
3305861 GAGATGGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (15 bp):
AAAAATTATATAGAA
Found at i:3306039 original size:20 final size:20
Alignment explanation
Indices: 3306016--3306083 Score: 77
Period size: 20 Copynumber: 3.4 Consensus size: 20
3306006 AAAAAAAAGT
3306016 TGTTGCGAAATTAAAATTCA
1 TGTTGCGAAATTAAAATTCA
*
3306036 TGTTGCG-AATTCAAAAATCGA
1 TGTTGCGAAATT-AAAATTC-A
* *
3306057 -GTTGCGAAATCAAAATTCG
1 TGTTGCGAAATTAAAATTCA
3306076 TGTTGCGA
1 TGTTGCGA
3306084 TTTAAAAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 4 0.10
20 32 0.80
21 4 0.10
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
TGTTGCGAAATTAAAATTCA
Found at i:3306052 original size:40 final size:38
Alignment explanation
Indices: 3306008--3306092 Score: 98
Period size: 40 Copynumber: 2.2 Consensus size: 38
3305998 GTGTTGAGAA
* *
3306008 AAAAAAGTTGTTGCGAAATTAAAATTCATGTTGCGAATTC
1 AAAAAAG-AGTTGCGAAATCAAAATTCATGTTGCG-ATTC
* * *
3306048 AAAAATCGAGTTGCGAAATCAAAATTCGTGTTGCGATTT
1 AAAAA-AGAGTTGCGAAATCAAAATTCATGTTGCGATTC
3306087 AAAAAA
1 AAAAAA
3306093 TCTTGTTGTG
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
39 8 0.21
40 29 0.76
41 1 0.03
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.29
Consensus pattern (38 bp):
AAAAAAGAGTTGCGAAATCAAAATTCATGTTGCGATTC
Found at i:3306091 original size:20 final size:20
Alignment explanation
Indices: 3306028--3306091 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
3306018 TTGCGAAATT
* *
3306028 AAAATTCATGTTGCGAATTCA
1 AAAATTCGTGTTGCG-ATTTA
* ** *
3306049 AAAA-TCGAGTTGCGAAATC
1 AAAATTCGTGTTGCGATTTA
3306068 AAAATTCGTGTTGCGATTTA
1 AAAATTCGTGTTGCGATTTA
3306088 AAAA
1 AAAA
3306092 ATCTTGTTGT
Statistics
Matches: 32, Mismatches: 10, Indels: 3
0.71 0.22 0.07
Matches are distributed among these distances:
19 5 0.16
20 23 0.72
21 4 0.12
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (20 bp):
AAAATTCGTGTTGCGATTTA
Found at i:3306093 original size:40 final size:40
Alignment explanation
Indices: 3306017--3306094 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
3306007 AAAAAAAGTT
* *
3306017 GTTGCGAAATTAAAATTCATGTTGCGAATTCAAAAATCGA
1 GTTGCGAAATCAAAATTCATGTTGCGAATTAAAAAATCGA
* *
3306057 GTTGCGAAATCAAAATTCGTGTTGCGATTTAAAAAATC
1 GTTGCGAAATCAAAATTCATGTTGCGAATTAAAAAATC
3306095 TTGTTGTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (40 bp):
GTTGCGAAATCAAAATTCATGTTGCGAATTAAAAAATCGA
Found at i:3306203 original size:40 final size:39
Alignment explanation
Indices: 3306156--3306264 Score: 112
Period size: 40 Copynumber: 2.7 Consensus size: 39
3306146 TTGGAAAATC
*
3306156 GCATTGCGATTT-ACATATTATCGTTGCGAATTTGACTTTT
1 GCATTGCGATTTAAC-T-TTAGCGTTGCGAATTTGACTTTT
* * *
3306196 GCGTTGCGATTTTAACTTTCGCGTTGTGAATTTGACTTTT
1 GCATTGCGA-TTTAACTTTAGCGTTGCGAATTTGACTTTT
* * *
3306236 GTATTGCGATTTTGACTTTCGCGTTGCGA
1 GCATTGCGA-TTTAACTTTAGCGTTGCGA
3306265 TTTACCTATT
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
40 53 0.90
41 4 0.07
42 2 0.03
ACGTcount: A:0.17, C:0.16, G:0.22, T:0.45
Consensus pattern (39 bp):
GCATTGCGATTTAACTTTAGCGTTGCGAATTTGACTTTT
Found at i:3306265 original size:20 final size:20
Alignment explanation
Indices: 3306177--3306267 Score: 110
Period size: 20 Copynumber: 4.5 Consensus size: 20
3306167 TACATATTAT
* *
3306177 CGTTGCGAATTTGACTTTTG
1 CGTTGCGATTTTGACTTTCG
*
3306197 CGTTGCGATTTTAACTTTCG
1 CGTTGCGATTTTGACTTTCG
* * *
3306217 CGTTGTGAATTTGACTTTTG
1 CGTTGCGATTTTGACTTTCG
**
3306237 TATTGCGATTTTGACTTTCG
1 CGTTGCGATTTTGACTTTCG
3306257 CGTTGCGATTT
1 CGTTGCGATTT
3306268 ACCTATTCGC
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 57 1.00
ACGTcount: A:0.14, C:0.15, G:0.23, T:0.47
Consensus pattern (20 bp):
CGTTGCGATTTTGACTTTCG
Found at i:3306282 original size:40 final size:40
Alignment explanation
Indices: 3306177--3306289 Score: 131
Period size: 40 Copynumber: 2.8 Consensus size: 40
3306167 TACATATTAT
* * *
3306177 CGTTGCGAATTTGACTTTTGCGTTGCGATTTTAACTTTCG
1 CGTTGCGAATTTGACTTTCGCATTGCGATTTTGACTTTCG
* * *
3306217 CGTTGTGAATTTGACTTTTGTATTGCGATTTTGACTTTCG
1 CGTTGCGAATTTGACTTTCGCATTGCGATTTTGACTTTCG
*
3306257 CGTTGCG-ATTT-ACCTATTCGCATTGCAATTTTG
1 CGTTGCGAATTTGA-CT-TTCGCATTGCGATTTTG
3306290 GAACCTGTGT
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.02
39 6 0.10
40 56 0.89
ACGTcount: A:0.16, C:0.17, G:0.21, T:0.46
Consensus pattern (40 bp):
CGTTGCGAATTTGACTTTCGCATTGCGATTTTGACTTTCG
Found at i:3306534 original size:25 final size:24
Alignment explanation
Indices: 3306501--3306561 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
3306491 GCTAATAAAT
*
3306501 AAAAT-ATAATAATATTTCTACTAA
1 AAAATAATAATAA-ATATCTACTAA
*
3306525 AAAATAATAATAAATATCTTCTAA
1 AAAATAATAATAAATATCTACTAA
*
3306549 AACAACAATAATA
1 AA-AATAATAATA
3306562 CTTCTTAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 16 0.50
25 16 0.50
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (24 bp):
AAAATAATAATAAATATCTACTAA
Found at i:3318521 original size:8 final size:8
Alignment explanation
Indices: 3318500--3318529 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
3318490 CTGGAGAATG
3318500 GAGAAGAA
1 GAGAAGAA
3318508 -AGAAGAA
1 GAGAAGAA
3318515 GAGAAGAA
1 GAGAAGAA
3318523 GAGAAGA
1 GAGAAGA
3318530 TGAAGAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (8 bp):
GAGAAGAA
Found at i:3322179 original size:17 final size:18
Alignment explanation
Indices: 3322159--3322199 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
3322149 TATATTTTTC
* *
3322159 ATTTTAA-TAAAATATTA
1 ATTTTAATTAAAACAATA
3322176 ATTTTAATTAAAACAATA
1 ATTTTAATTAAAACAATA
3322194 ATTTTA
1 ATTTTA
3322200 CGGTATGCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTTTAATTAAAACAATA
Found at i:3322823 original size:3 final size:3
Alignment explanation
Indices: 3322817--3322869 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
3322807 CATTTTTTTA
3322817 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
3322865 AAT AA
1 AAT AA
3322870 CAACAACAAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:3323020 original size:2 final size:2
Alignment explanation
Indices: 3323008--3323038 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
3322998 AACGCAACAC
3323008 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3323039 GGATACATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3323929 original size:16 final size:16
Alignment explanation
Indices: 3323908--3323940 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
3323898 GAACCGATCT
*
3323908 CTCCCTTTTTTTTCTC
1 CTCCCTTTTTCTTCTC
3323924 CTCCCTTTTTCTTCTC
1 CTCCCTTTTTCTTCTC
3323940 C
1 C
3323941 AAAAAATCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (16 bp):
CTCCCTTTTTCTTCTC
Found at i:3324809 original size:91 final size:88
Alignment explanation
Indices: 3324613--3324819 Score: 234
Period size: 91 Copynumber: 2.3 Consensus size: 88
3324603 TTGAATCCGG
* * * * ** * * *
3324613 TTGATTTGCTTCACTGCTCTTCAAGGAAGATAAAATATGAAAAATGGATATTCTCTGCTGCTTTT
1 TTGATTTACTTCATTGCTCTTCAAGGAAGATAAAATATGAAAAAGGGATATGCTCAACTACGTTC
3324678 CAAGGAAGATCAATCTGGAAACT
66 CAAGGAAGATCAATCTGGAAACT
* * * * *
3324701 TTGATTCACTTAATTGCTCTTCAGGGAAGATCAAATCTGGAAAAAAGGGATATGCTCAACTACGT
1 TTGATTTACTTCATTGCTCTTCAAGGAAGATAAAATAT-G-AAAAAGGGATATGCTCAACTACGT
* *
3324766 TCCAAGGTAGATCAAATCTGGAAAGT
64 TCCAAGGAAGATC-AATCTGGAAACT
*
3324792 TTGATTTACTTCATTGCTCTTCATGGAA
1 TTGATTTACTTCATTGCTCTTCAAGGAA
3324820 TATTGATTCA
Statistics
Matches: 97, Mismatches: 19, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
88 31 0.32
89 1 0.01
90 29 0.30
91 36 0.37
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (88 bp):
TTGATTTACTTCATTGCTCTTCAAGGAAGATAAAATATGAAAAAGGGATATGCTCAACTACGTTC
CAAGGAAGATCAATCTGGAAACT
Found at i:3325182 original size:262 final size:262
Alignment explanation
Indices: 3324715--3325412 Score: 806
Period size: 262 Copynumber: 2.6 Consensus size: 262
3324705 TTCACTTAAT
* ** * *
3324715 TGCTCTTCAGGGAAGATCAAATCTGGAAAAAAGGGATATGCTCAACTACGTTCCAAGGTAGATCA
1 TGCTCTTCAGGGAAGATCAAATCTGAAAAAAAAAGATATGCTCCACTGCGTTCCAAGGTAGATCA
* * * * * * * * *
3324780 AATCTGGAAAGTTTGATTTACTTCATTGCTCTTCATGGAATATTGATTCAGGGTTGATTCGTTTC
66 GATCTGAAAAGTTTGATTCACTTCATTACTCTTCAAGGAAGATTGAATCAGGGTTGATTTGCTTC
* * * * * *
3324845 ACTATTCTTCAAGGAATATCAAATATAAAAAGGGGATATGTTCCGCTGAGTTCCAGAGTAGATCA
131 ACTACTCTTCAGGGAAGATCAAATCTAAAAAAGGGATATGCTCCGCTGAGTTCCAGAGTAGATCA
* * * * *
3324910 GATCTGGAAAGTTTGATTCACTTCATTACT-TTTTAGGAAAGATTGAATCGGGGTTGATTTGTTT
196 GATATGGAAAGTTTGATTCACTTCACTACTCATCTAGG-AAGATTGAATCGGGGTTGATTTGCTT
*
3324974 TAC
260 CAC
* * * * *
3324977 TGCTCTTCAGGGATGATCAAATATGAAAAAAAATGATATGTTCCATTGCGTTCCAAGGTAGATCA
1 TGCTCTTCAGGGAAGATCAAATCTGAAAAAAAAAGATATGCTCCACTGCGTTCCAAGGTAGATCA
* * * * * * * *
3325042 GATCTAAAAAGTTTGACTCACTTCATTTCCCTACAAGGAAGATTCAATCGGGGTTGATTTACTTC
66 GATCTGAAAAGTTTGATTCACTTCATTACTCTTCAAGGAAGATTGAATCAGGGTTGATTTGCTTC
* * * * * *
3325107 ACTGCTCTTCAGGGAAGATCAAATCTAAAAAAGGGATCTGCTCCGTTGCGTTCCAGGGTATATCA
131 ACTACTCTTCAGGGAAGATCAAATCTAAAAAAGGGATATGCTCCGCTGAGTTCCAGAGTAGATCA
* * *
3325172 GATATGGAAAGTTTGATTTACTTCACTGCTCATCTAGGAAGATTGAATTGGGGTTGATTTGCTTC
196 GATATGGAAAGTTTGATTCACTTCACTACTCATCTAGGAAGATTGAATCGGGGTTGATTTGCTTC
3325237 AC
261 AC
* * *
3325239 TGCTCTT-AAGGAAGATCAAATCTAGAAAAAAAAAAGATATGCTCCACTGAGTTCCAGGGTAGAT
1 TGCTCTTCAGGGAAGATCAAATCT-G-AAAAAAAAAGATATGCTCCACTGCGTTCCAAGGTAGAT
* * * * * *
3325303 CAGATCTGAAAAGTTTGATTCAATTTACTACTCTTTAGGGAAGATTGAATCAGGGTTTATTTGCT
64 CAGATCTGAAAAGTTTGATTCACTTCATTACTCTTCAAGGAAGATTGAATCAGGGTTGATTTGCT
*
3325368 TCACTACTCTTCAGAGAAGATCAAATCTGGAAAAAAAGGGATATG
129 TCACTACTCTTCAGGGAAGATCAAATCT---AAAAAAGGGATATG
3325413 TTCTATTTCT
Statistics
Matches: 359, Mismatches: 71, Indels: 8
0.82 0.16 0.02
Matches are distributed among these distances:
261 13 0.04
262 218 0.61
263 115 0.32
266 13 0.04
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.32
Consensus pattern (262 bp):
TGCTCTTCAGGGAAGATCAAATCTGAAAAAAAAAGATATGCTCCACTGCGTTCCAAGGTAGATCA
GATCTGAAAAGTTTGATTCACTTCATTACTCTTCAAGGAAGATTGAATCAGGGTTGATTTGCTTC
ACTACTCTTCAGGGAAGATCAAATCTAAAAAAGGGATATGCTCCGCTGAGTTCCAGAGTAGATCA
GATATGGAAAGTTTGATTCACTTCACTACTCATCTAGGAAGATTGAATCGGGGTTGATTTGCTTC
AC
Done.