Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 57 of 332
Found at i:16949355 original size:46 final size:49
Alignment explanation
Indices: 16949104--16949425 Score: 242
Period size: 46 Copynumber: 6.8 Consensus size: 49
16949094 ATAAGGTGTA
* * * *
16949104 ATGCTGATGCCACGTCCCAGACATGGTCTTACACTGGCTCATCCA--TC-
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TACATCTCG
* * * * * ** **
16949151 AAGTCGATGCCATGTCCCAAACATAGTCTTACACT-GACTATTGAAATCG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTACATCTCG
* * * * * *
16949200 AGGTCGACGCCATGTCCCAAAGATGGTCTTACACTGGCTCTCACATCTCCG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-ACATCT-CG
* *
16949251 -TGCCGATGCCATGTCCCAGACATGGTCTTACA-TAG-AC-ACATCTTG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATCTCG
* *
16949296 -TAGCCAATG-CATGTCCCATACAT-GTCTTACACTAGCT-TACATCTCG
1 AT-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATCTCG
* * * *
16949342 AGGCCGATG-CATGTCCGAGACAT-GTCTTACACTAGCTCT-CGTCTCA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATCTCG
*
16949388 ATGTCGATGCCATGTCCCAGACATGGTCTTACACTAGC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
16949426 GCACAAATGA
Statistics
Matches: 221, Mismatches: 39, Indels: 29
0.76 0.13 0.10
Matches are distributed among these distances:
44 8 0.04
45 18 0.08
46 66 0.30
47 45 0.20
48 16 0.07
49 36 0.16
50 30 0.14
51 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (49 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATCTCG
Found at i:16950847 original size:39 final size:39
Alignment explanation
Indices: 16950804--16950966 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
16950794 AAACTTTAGC
* * * * *
16950804 CCGGACATATTTCCAGCACGTAGCCTGTGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
16950843 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
* *
16950882 TCGGATATAATTCCAGCACATAGCCTGCGGACCCTAGGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
16950921 CCGGATATAATTCTAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
16950960 CCGGATA
1 CCGGATA
16950967 CACATCAAAT
Statistics
Matches: 114, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 114 1.00
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:16950859 original size:78 final size:78
Alignment explanation
Indices: 16950786--16950964 Score: 214
Period size: 78 Copynumber: 2.3 Consensus size: 78
16950776 ACCAGCTCGA
* * * * * *
16950786 AGCCTGCGAAACTTTAGCCCGGACATATTTCCAGCACGTAGCCTGTGGACCTTAAGTCCGGATAT
1 AGCCTGCGAAACCTAAGCCCGGACATAATTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATAT
16950851 AATTCCAGCACAT
66 AATTCCAGCACAT
* * ** * *
16950864 AGCCTGCGGACCCTAAGTTCGGATATAATTCCAGCACATAGCCTGCGGACCCTAGGTCCGGATAT
1 AGCCTGCGAAACCTAAGCCCGGACATAATTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATAT
*
16950929 AATTCTAGCACAT
66 AATTCCAGCACAT
* * *
16950942 AGCCTGCGGACCCTAAGTCCGGA
1 AGCCTGCGAAACCTAAGCCCGGA
16950965 TACACATCAA
Statistics
Matches: 87, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
78 87 1.00
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.22
Consensus pattern (78 bp):
AGCCTGCGAAACCTAAGCCCGGACATAATTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATAT
AATTCCAGCACAT
Found at i:16956292 original size:35 final size:35
Alignment explanation
Indices: 16956246--16956312 Score: 125
Period size: 35 Copynumber: 1.9 Consensus size: 35
16956236 AACGACGTCA
16956246 TTTTGGGGGCCTATATAAGTCAAATTTTTTGGTCG
1 TTTTGGGGGCCTATATAAGTCAAATTTTTTGGTCG
*
16956281 TTTTGGGGGCCTATATAAGTCAATTTTTTTGG
1 TTTTGGGGGCCTATATAAGTCAAATTTTTTGG
16956313 AAAAAAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.19, C:0.10, G:0.25, T:0.45
Consensus pattern (35 bp):
TTTTGGGGGCCTATATAAGTCAAATTTTTTGGTCG
Found at i:16957021 original size:24 final size:23
Alignment explanation
Indices: 16956988--16957033 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
16956978 GGGTCTGGGT
*
16956988 TTAGTAGGTTTTGGGGTTATTGGC
1 TTAGTAGGTTTAGGGGTT-TTGGC
*
16957012 TTAGTGGGTTTAGGGGTTTTGG
1 TTAGTAGGTTTAGGGGTTTTGG
16957034 GCCCAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.11, C:0.02, G:0.41, T:0.46
Consensus pattern (23 bp):
TTAGTAGGTTTAGGGGTTTTGGC
Found at i:16959748 original size:33 final size:34
Alignment explanation
Indices: 16959694--16959776 Score: 116
Period size: 33 Copynumber: 2.5 Consensus size: 34
16959684 GACATAAAGC
* *
16959694 TTAAC-TTATAATTCAATAATTTAGATTTAATAG
1 TTAACTTTATAATTTAATAATTTAGATTTAATAA
16959727 TTAACTTTATAATTTAA-AATTTAGATTTAATAA
1 TTAACTTTATAATTTAATAATTTAGATTTAATAA
* *
16959760 TGAACTTCATAATTTAA
1 TTAACTTTATAATTTAA
16959777 GTATTAAAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
33 35 0.78
34 10 0.22
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (34 bp):
TTAACTTTATAATTTAATAATTTAGATTTAATAA
Found at i:16960456 original size:23 final size:24
Alignment explanation
Indices: 16960437--16960482 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
16960427 GTTTGTTTTC
16960437 TTAT-TATTCATAAACATGTTTAA
1 TTATATATTCATAAACATGTTTAA
* *
16960460 TTATATGTTCATGAACATGTTTA
1 TTATATATTCATAAACATGTTTA
16960483 TTTAATGTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.48
Consensus pattern (24 bp):
TTATATATTCATAAACATGTTTAA
Found at i:16960494 original size:23 final size:24
Alignment explanation
Indices: 16960443--16960494 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
16960433 TTTCTTATTA
16960443 TTCATAAACATGTTTAATTATATG
1 TTCATAAACATGTTTAATTATATG
* *
16960467 TTCATGAACATGTTTATTTA-ATG
1 TTCATAAACATGTTTAATTATATG
16960490 TTCAT
1 TTCAT
16960495 TTAACTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 8 0.31
24 18 0.69
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.48
Consensus pattern (24 bp):
TTCATAAACATGTTTAATTATATG
Found at i:16970073 original size:18 final size:17
Alignment explanation
Indices: 16970031--16970093 Score: 72
Period size: 17 Copynumber: 3.6 Consensus size: 17
16970021 TCTGCGAACC
*
16970031 GCGAGCTCACCAAATGT
1 GCGAGCTCACCAAAAGT
*
16970048 GTGAGCTCACCAAAAGAT
1 GCGAGCTCACCAAAAG-T
* *
16970066 GCGAGCTCACCAAGACT
1 GCGAGCTCACCAAAAGT
*
16970083 GTGAGCTCACC
1 GCGAGCTCACC
16970094 TGTAACACTC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
17 25 0.64
18 14 0.36
ACGTcount: A:0.30, C:0.30, G:0.24, T:0.16
Consensus pattern (17 bp):
GCGAGCTCACCAAAAGT
Found at i:16971635 original size:40 final size:40
Alignment explanation
Indices: 16971554--16971637 Score: 107
Period size: 40 Copynumber: 2.1 Consensus size: 40
16971544 CTCAGTCTCA
* * *
16971554 CACACTAAGTGCCATATATAACTGAAGTTATTCCGATACG
1 CACACTAAGTGCCATATATAACCGAAGCTATTCCGAAACG
* *
16971594 CACACTAAGTGCTATATATAGCCGAAGCTA-TCTCGAAACG
1 CACACTAAGTGCCATATATAACCGAAGCTATTC-CGAAACG
16971634 CACA
1 CACA
16971638 TTAAATGACA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
39 2 0.05
40 36 0.95
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (40 bp):
CACACTAAGTGCCATATATAACCGAAGCTATTCCGAAACG
Found at i:16972854 original size:17 final size:16
Alignment explanation
Indices: 16972832--16972888 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
16972822 AAAATACGAT
16972832 CTCACCAAGATCGTGAG
1 CTCACCAAGAT-GTGAG
*
16972849 CTCACCAACATTGTGAG
1 CTCACCAAGA-TGTGAG
* *
16972866 CTTACCAAGCATGAGAG
1 CTCACCAAG-ATGTGAG
16972883 CTCACC
1 CTCACC
16972889 TGTGAGCTCT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
17 31 0.94
18 2 0.06
ACGTcount: A:0.30, C:0.32, G:0.19, T:0.19
Consensus pattern (16 bp):
CTCACCAAGATGTGAG
Found at i:16993650 original size:17 final size:17
Alignment explanation
Indices: 16993630--16993690 Score: 72
Period size: 17 Copynumber: 3.6 Consensus size: 17
16993620 CAGCAAATGT
16993630 GCGAGCTCACCAAGATC
1 GCGAGCTCACCAAGATC
*
16993647 GCGAGCTCACCAACA-C
1 GCGAGCTCACCAAGATC
16993663 TGCGAGCTCACCAAGCAT-
1 -GCGAGCTCACCAAG-ATC
*
16993681 GAGAGCTCAC
1 GCGAGCTCAC
16993691 TTGCAAGCTC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
16 1 0.03
17 36 0.95
18 1 0.03
ACGTcount: A:0.30, C:0.36, G:0.23, T:0.11
Consensus pattern (17 bp):
GCGAGCTCACCAAGATC
Found at i:17010692 original size:43 final size:42
Alignment explanation
Indices: 17010602--17010695 Score: 100
Period size: 43 Copynumber: 2.2 Consensus size: 42
17010592 CTCAGACAGG
* * *
17010602 GTCTTACACGAATCACAATTACGATGCCAATGTCCCATACATG
1 GTCTTACACGAATCACAATTA-GATGCCAACGTCCCAGACATC
* **
17010645 GTCTTACTCGAAATCACATATT-GATGCCAACGTCCCAGATGTC
1 GTCTTACACG-AATCACA-ATTAGATGCCAACGTCCCAGACATC
17010688 GTCTTACA
1 GTCTTACA
17010696 TGAGAACACA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
43 32 0.76
44 7 0.17
45 3 0.07
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (42 bp):
GTCTTACACGAATCACAATTAGATGCCAACGTCCCAGACATC
Found at i:17012878 original size:93 final size:93
Alignment explanation
Indices: 17012719--17012890 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
17012709 CGCCCATAAG
* * *
17012719 CGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTAGGACTCAACTCA
17012784 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
17012812 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTAGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTAGGACTCAACTCA
17012877 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
17012891 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTAGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:17012887 original size:46 final size:46
Alignment explanation
Indices: 17012712--17012887 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
17012702 TGTAACCCGC
* * *
17012712 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * * *
17012758 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
17012808 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* *
17012851 CCATAAGTGAACTAGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
17012888 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 5 0.05
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:17015020 original size:43 final size:43
Alignment explanation
Indices: 17014954--17015036 Score: 157
Period size: 43 Copynumber: 1.9 Consensus size: 43
17014944 GAATGAGTAG
*
17014954 ATCCTATGTCTATTAGTGTAGTATAAGGTACATTATAGATTAT
1 ATCCTATGTCTATTAGTGCAGTATAAGGTACATTATAGATTAT
17014997 ATCCTATGTCTATTAGTGCAGTATAAGGTACATTATAGAT
1 ATCCTATGTCTATTAGTGCAGTATAAGGTACATTATAGAT
17015037 AAAGAACGTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.40
Consensus pattern (43 bp):
ATCCTATGTCTATTAGTGCAGTATAAGGTACATTATAGATTAT
Found at i:17030712 original size:19 final size:19
Alignment explanation
Indices: 17030688--17030738 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
17030678 ACTATCATGA
17030688 AGAGAACAAAGACGTCCAT
1 AGAGAACAAAGACGTCCAT
*
17030707 AGAGAACAAAGATGTCCAT
1 AGAGAACAAAGACGTCCAT
*
17030726 -GAAGAACGAAGAC
1 AG-AGAACAAAGAC
17030739 TACGGATAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 1 0.04
19 27 0.96
ACGTcount: A:0.49, C:0.18, G:0.24, T:0.10
Consensus pattern (19 bp):
AGAGAACAAAGACGTCCAT
Found at i:17033438 original size:6 final size:6
Alignment explanation
Indices: 17033420--17033458 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
17033410 TCCTCTCTTT
* * *
17033420 TTTTTA TTCTTA TTTTTA TTTTTC TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
17033459 CAATTTTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.13, C:0.08, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:17033464 original size:24 final size:23
Alignment explanation
Indices: 17033419--17033478 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 23
17033409 CTCCTCTCTT
**
17033419 TTTTTTATTCTTATTTTTATTTT-
1 TTTTTTATT-TTATTTCAATTTTA
17033442 TCTTTTTATTTTCATTTCAATTTTA
1 T-TTTTTATTTT-ATTTCAATTTTA
17033467 TTATTTTATTTT
1 TT-TTTTATTTT
17033479 GAAAGACATA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
23 3 0.10
24 18 0.58
25 10 0.32
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.77
Consensus pattern (23 bp):
TTTTTTATTTTATTTCAATTTTA
Found at i:17038853 original size:21 final size:20
Alignment explanation
Indices: 17038829--17038867 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
17038819 GTGTAAATGT
17038829 AGTAACATAATTGTCATTTTA
1 AGTAACATAA-TGTCATTTTA
**
17038850 AGTAATTTAATGTCATTT
1 AGTAACATAATGTCATTT
17038868 ATATGATATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.46
Consensus pattern (20 bp):
AGTAACATAATGTCATTTTA
Found at i:17057739 original size:27 final size:27
Alignment explanation
Indices: 17057682--17057741 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
17057672 ATACATATCA
*
17057682 TAGGGGCATATAAGCCATTTTACCATG
1 TAGGGGCATATAAGCCATTTTACAATG
* * *
17057709 TAGGGGCATTTCAGTCATTTTATCAAT-
1 TAGGGGCATATAAGCCATTTTA-CAATG
17057736 TAGGGG
1 TAGGGG
17057742 GTCTAAGTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 25 0.89
28 3 0.11
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (27 bp):
TAGGGGCATATAAGCCATTTTACAATG
Found at i:17061833 original size:32 final size:32
Alignment explanation
Indices: 17061797--17061868 Score: 117
Period size: 32 Copynumber: 2.2 Consensus size: 32
17061787 ATGGCATTGT
* *
17061797 AACTGATATTGGTTTTGATATGGGCTAGGCCC
1 AACTGATATTGATTTTGAGATGGGCTAGGCCC
17061829 AACTGATATTGATTTTGAGATGGGCTAGGCCC
1 AACTGATATTGATTTTGAGATGGGCTAGGCCC
*
17061861 AATTGATA
1 AACTGATA
17061869 CTATGATGGG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.33
Consensus pattern (32 bp):
AACTGATATTGATTTTGAGATGGGCTAGGCCC
Found at i:17063629 original size:6 final size:6
Alignment explanation
Indices: 17063566--17063758 Score: 119
Period size: 6 Copynumber: 31.3 Consensus size: 6
17063556 AAGAAACATT
* * * * * *
17063566 ATCAGA A-CTAGA ATCAAA ATGAGA ATTACA ATCAGA ATCAAA ATCAGGTG
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
* *
17063616 AT-AGA ATCAAA ATCAGA ATCAGA ATCAGA ATTAGGTA A-CAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* * * * *
17063664 ATCAGT ATCAGGTA A-CAGA ATTAGA ATCAGA ACCAGA ATCAAA ATTAGGTA
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
17063715 A-CAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
17063759 GTGAATGCAA
Statistics
Matches: 143, Mismatches: 27, Indels: 34
0.70 0.13 0.17
Matches are distributed among these distances:
5 11 0.08
6 113 0.79
7 11 0.08
8 8 0.06
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:17063675 original size:62 final size:62
Alignment explanation
Indices: 17063595--17063758 Score: 256
Period size: 62 Copynumber: 2.6 Consensus size: 62
17063585 TGAGAATTAC
** * * * *
17063595 AATCAGAATCAAAATCAGGTGATAGAATCAAAATCAGAATCAGAATCAGAATTAGGTAACAG
1 AATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAATCAGAATCAAAATTAGGTAACAG
* *
17063657 AATCAGAATCAGTATCAGGTAACAGAATTAGAATCAGAACCAGAATCAAAATTAGGTAACAG
1 AATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAATCAGAATCAAAATTAGGTAACAG
17063719 AATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAAT
1 AATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAAT
17063759 GTGAATGCAA
Statistics
Matches: 92, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 92 1.00
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.20
Consensus pattern (62 bp):
AATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAATCAGAATCAAAATTAGGTAACAG
Found at i:17063695 original size:37 final size:37
Alignment explanation
Indices: 17063654--17063736 Score: 112
Period size: 37 Copynumber: 2.2 Consensus size: 37
17063644 AATTAGGTAA
** *
17063654 CAGAATCAGAATCAGTATCAGGTAACAGAATTAGAAT
1 CAGAATCAGAATCAAAATCAGGTAACAGAATCAGAAT
* *
17063691 CAGAACCAGAATCAAAATTAGGTAACAGAATCAGAAT
1 CAGAATCAGAATCAAAATCAGGTAACAGAATCAGAAT
*
17063728 CAGTATCAG
1 CAGAATCAG
17063737 GTAACAGAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.19
Consensus pattern (37 bp):
CAGAATCAGAATCAAAATCAGGTAACAGAATCAGAAT
Found at i:17063755 original size:25 final size:25
Alignment explanation
Indices: 17063595--17063758 Score: 110
Period size: 25 Copynumber: 6.6 Consensus size: 25
17063585 TGAGAATTAC
* * *
17063595 AATCAGAATCAAAATCAGGTGATAG
1 AATCAGAATCAGAATCAGGTAACAG
*
17063620 AATCAAAATCAGAATCA-G-AATCAG
1 AATCAGAATCAGAATCAGGTAA-CAG
*
17063644 AATTAGGTAA-CAGAATCA-G-AATCAG
1 AATCA-G-AATCAGAATCAGGTAA-CAG
* *
17063669 TATCAGGTAA-CAGAATTA-G-AATCAG
1 AATCA-G-AATCAGAATCAGGTAA-CAG
* * *
17063694 AACCAGAATCAAAATTAGGTAACAG
1 AATCAGAATCAGAATCAGGTAACAG
*
17063719 AATCAGAATCAGTATCAGGTAACAG
1 AATCAGAATCAGAATCAGGTAACAG
17063744 AATCAGAATCAGAAT
1 AATCAGAATCAGAAT
17063759 GTGAATGCAA
Statistics
Matches: 116, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
23 3 0.03
24 15 0.13
25 94 0.81
26 4 0.03
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.20
Consensus pattern (25 bp):
AATCAGAATCAGAATCAGGTAACAG
Found at i:17064203 original size:27 final size:27
Alignment explanation
Indices: 17064173--17064477 Score: 287
Period size: 27 Copynumber: 11.3 Consensus size: 27
17064163 GGGGTAAAAT
* *
17064173 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
17064200 GGTAATTCTACCTTAC-AGGAGTATTTC
1 GGTAATTTTACCCTACAAGG-GTATTTC
* * *
17064227 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
17064254 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* ** * * *
17064281 GGTAATTCTATTCTATAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* * * * *
17064308 AGTAATTATACTCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
17064335 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * * *
17064362 GGTAATTCTACTCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
17064389 AGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
17064416 AGT-ATTTCACCCTACAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
17064442 GG-CATTTCTACCCTACAAGGGTATTTA
1 GGTAATTT-TACCCTACAAGGGTATTTC
17064469 GGTAATTTT
1 GGTAATTTT
17064478 GTAAATCGAG
Statistics
Matches: 230, Mismatches: 39, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
26 35 0.15
27 183 0.80
28 12 0.05
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:17064305 original size:81 final size:80
Alignment explanation
Indices: 17064177--17064475 Score: 397
Period size: 81 Copynumber: 3.7 Consensus size: 80
17064167 TAAAATGGTA
* * * * * *
17064177 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCTTACAGGAGTATTTCAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTATC-TACAGGGGTATTTTAGTAATTATACCCT
17064241 ACAGGGGTATTTCGGT
65 ACAGGGGTATTTCGGT
* *
17064257 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTATTCTATAGGGGTATTTTAGTAATTATACTCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTA-TCTACAGGGGTATTTTAGTAATTATACCCT
*
17064322 ACAGGGGTATTTTGGT
65 ACAGGGGTATTTCGGT
*
17064338 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACTCTACAGGGGTATTTTAGTAATTTTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTA-TCTACAGGGGTATTTTAGTAATTATACCCT
*
17064403 ACAGGGGTATTTCAGT
65 ACAGGGGTATTTCGGT
* * * *
17064419 ATTTC-ACCCTACAAGGGTATTTCGGCATTTCTACCCTACAAGGGTA-TTTAGGTAATT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTA-TCTACAGGGGTATTTTA-GTAATT
17064476 TTGTAAATCG
Statistics
Matches: 197, Mismatches: 19, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
79 4 0.02
80 47 0.24
81 145 0.74
82 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (80 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTATCTACAGGGGTATTTTAGTAATTATACCCTA
CAGGGGTATTTCGGT
Found at i:17064489 original size:27 final size:26
Alignment explanation
Indices: 17064459--17064667 Score: 118
Period size: 27 Copynumber: 7.7 Consensus size: 26
17064449 CTACCCTACA
*
17064459 AGGGTATTTAGGTAATTTTGTAAATCG
1 AGGGTATTTA-GTAATTTTATAAATCG
** * *
17064486 AGGGTAAAATAGTAATTTTGTAAATCA
1 AGGGT-ATTTAGTAATTTTATAAATCG
* * *
17064513 AGGGTACTTTGGTAATTTTACAAGTCG
1 AGGGTA-TTTAGTAATTTTATAAATCG
* **
17064540 AGGGTATTTCAATAATTTTATAGGTCG
1 AGGGTATTT-AGTAATTTTATAAATCG
* *
17064567 AGGGTATTTTAGTAATTTCACAAATC-
1 AGGGTA-TTTAGTAATTTTATAAATCG
* * *
17064593 AGGGGTATTTTGATAATTTTACAAA-CT
1 A-GGGTATTTAG-TAATTTTATAAATCG
* * *
17064620 AGGGGTATTTTGATAATTTTACAAA-CT
1 A-GGGTATTTAG-TAATTTTATAAATCG
*
17064647 AGGGGTATTTTGGTAATTTTA
1 A-GGGTA-TTTAGTAATTTTA
17064668 CAAACTAGGG
Statistics
Matches: 152, Mismatches: 22, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
26 10 0.07
27 132 0.87
28 10 0.07
ACGTcount: A:0.32, C:0.07, G:0.22, T:0.40
Consensus pattern (26 bp):
AGGGTATTTAGTAATTTTATAAATCG
Found at i:17064499 original size:107 final size:107
Alignment explanation
Indices: 17064162--17064504 Score: 268
Period size: 108 Copynumber: 3.2 Consensus size: 107
17064152 TTAACACCCT
* * * * * * *
17064162 AGGGGTAAAATGGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCTTAC-AGGAGTATTT
1 AGGGGTAAAATAGTAATTTTACCCTACAGGGGTATTTCAGTAATTATACCCTACAAGG-GTATTT
* * * * * * *
17064226 CAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACA
65 CGGCATTTCTACCCTACAAGGGTATTTAGGTAATTCTA-TCTA-A
** * * ** * * * *
17064271 A-GGGT-ATTTCGGTAATTCTATTCTATAGGGGTATTTTAGTAATTATACTCTACAGGGGTATTT
1 AGGGGTAAAAT-AGTAATTTTACCCTACAGGGGTATTTCAGTAATTATACCCTACAAGGGTATTT
* * * *
17064334 TGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACTCTAC
65 CGGCATTTCTACCCTACAAGGGTATTTAGGTAATTCTA-TCTAA
***
17064378 AGGGGTATTTTAGTAATTTTACCCTACAGGGGTATTTCAGT-ATT-TCACCCTACAAGGGTATTT
1 AGGGGTAAAATAGTAATTTTACCCTACAGGGGTATTTCAGTAATTAT-ACCCTACAAGGGTATTT
*
17064441 CGGCATTTCTACCCTACAAGGGTATTTAGGTAATT-T-TGTAA
65 CGGCATTTCTACCCTACAAGGGTATTTAGGTAATTCTATCTAA
17064482 ATCGAGGGTAAAATAGTAATTTT
1 A--G-GGGTAAAATAGTAATTTT
17064505 GTAAATCAAG
Statistics
Matches: 187, Mismatches: 39, Indels: 18
0.77 0.16 0.07
Matches are distributed among these distances:
104 4 0.02
106 3 0.02
107 68 0.36
108 106 0.57
109 6 0.03
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.37
Consensus pattern (107 bp):
AGGGGTAAAATAGTAATTTTACCCTACAGGGGTATTTCAGTAATTATACCCTACAAGGGTATTTC
GGCATTTCTACCCTACAAGGGTATTTAGGTAATTCTATCTAA
Found at i:17064556 original size:54 final size:54
Alignment explanation
Indices: 17064498--17064656 Score: 153
Period size: 54 Copynumber: 2.9 Consensus size: 54
17064488 GGTAAAATAG
* * *
17064498 TAATTTTGTAAATCAAGGGTACTTTGGTAATTTTACAAGTC-GAGGGTATTTCAA
1 TAATTTTATAAATCAAGGGTATTTTGGTAATTTTACAAATCAG-GGGTATTTCAA
** * * * **
17064552 TAATTTTATAGGTCGAGGGTATTTTAGTAATTTCACAAATCAGGGGTATTTTGA
1 TAATTTTATAAATCAAGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTCAA
* * *
17064606 TAATTTTACAAA-CTAGGGGTATTTTGATAATTTTACAAA-CTAGGGGTATTT
1 TAATTTTATAAATC-AAGGGTATTTTGGTAATTTTACAAATC-AGGGGTATTT
17064657 TGGTAATTTT
Statistics
Matches: 84, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
53 2 0.02
54 81 0.96
55 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.40
Consensus pattern (54 bp):
TAATTTTATAAATCAAGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTCAA
Found at i:17064626 original size:81 final size:81
Alignment explanation
Indices: 17064507--17064685 Score: 193
Period size: 81 Copynumber: 2.2 Consensus size: 81
17064497 GTAATTTTGT
* * * * * * **
17064507 AAATCAAGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTATAGGTCGA-GGG
1 AAATCAGGGGTATTTTGATAATTTTACAACTAGAGGGTATTTCAATAATTTTACA-AACGAGGGG
17064571 TATTTTAGTAATTTCAC
65 TATTTTAGTAATTTCAC
** *
17064588 AAATCAGGGGTATTTTGATAATTTTACAAACTAG-GGGTATTTTGATAATTTTACAAACTAGGGG
1 AAATCAGGGGTATTTTGATAATTTTAC-AACTAGAGGGTATTTCAATAATTTTACAAACGAGGGG
* *
17064652 TATTTTGGTAATTTTAC
65 TATTTTAGTAATTTCAC
17064669 AAA-CTAGGGGTATTTTG
1 AAATC-AGGGGTATTTTG
17064686 GGCCCTTTTA
Statistics
Matches: 82, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
80 3 0.04
81 75 0.91
82 4 0.05
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.39
Consensus pattern (81 bp):
AAATCAGGGGTATTTTGATAATTTTACAACTAGAGGGTATTTCAATAATTTTACAAACGAGGGGT
ATTTTAGTAATTTCAC
Found at i:17064668 original size:27 final size:27
Alignment explanation
Indices: 17064568--17064686 Score: 186
Period size: 27 Copynumber: 4.4 Consensus size: 27
17064558 TATAGGTCGA
* *
17064568 GGGTATTTTAGTAATTTCACAAA-TCAG
1 GGGTATTTTGGTAATTTTACAAACT-AG
*
17064595 GGGTATTTTGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
17064622 GGGTATTTTGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
17064649 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
17064676 GGGTATTTTGG
1 GGGTATTTTGG
17064687 GCCCTTTTAG
Statistics
Matches: 87, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
27 86 0.99
28 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:17067788 original size:20 final size:21
Alignment explanation
Indices: 17067763--17067804 Score: 77
Period size: 20 Copynumber: 2.0 Consensus size: 21
17067753 TTCTCCTAAC
17067763 CAATTGATTCACTTTCC-TTT
1 CAATTGATTCACTTTCCATTT
17067783 CAATTGATTCACTTTCCATTT
1 CAATTGATTCACTTTCCATTT
17067804 C
1 C
17067805 TTAACCTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.21, C:0.26, G:0.05, T:0.48
Consensus pattern (21 bp):
CAATTGATTCACTTTCCATTT
Found at i:17068995 original size:31 final size:32
Alignment explanation
Indices: 17068944--17069013 Score: 115
Period size: 31 Copynumber: 2.2 Consensus size: 32
17068934 AATTGAAATA
* *
17068944 GGCTAGGCCTAACTGATATTGGTTCTGATATG
1 GGCTAGGCCTAACTGATATTGATTCTGAGATG
17068976 GGCTAGGCCTAA-TGATATTGATTCTGAGATG
1 GGCTAGGCCTAACTGATATTGATTCTGAGATG
17069007 GGCTAGG
1 GGCTAGG
17069014 TCCAATTGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
31 24 0.67
32 12 0.33
ACGTcount: A:0.23, C:0.14, G:0.31, T:0.31
Consensus pattern (32 bp):
GGCTAGGCCTAACTGATATTGATTCTGAGATG
Found at i:17071639 original size:46 final size:46
Alignment explanation
Indices: 17071586--17071711 Score: 216
Period size: 46 Copynumber: 2.7 Consensus size: 46
17071576 TATTTGGGCA
* *
17071586 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
17071632 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
17071678 TCCGAGCTCTTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
17071712 GGGGCGGGTT
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.32
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:17073958 original size:24 final size:24
Alignment explanation
Indices: 17073926--17074037 Score: 109
Period size: 24 Copynumber: 4.6 Consensus size: 24
17073916 TCTTACTCAT
*
17073926 TCGCACACATAGTGCCACGT-TTCC
1 TCGCACACATAGTGCCACGTAAT-C
* *
17073950 TCGCACACATAGTGCTATGTAATC
1 TCGCACACATAGTGCCACGTAATC
* *
17073974 TCGCACACATAGTGCCACGTAGTTT
1 TCGCACACATAGTGCCACGTA-ATC
* * * *
17073999 TTGCACACATAGTGCCGCATAACC
1 TCGCACACATAGTGCCACGTAATC
*
17074023 TCTCACACATAGTGC
1 TCGCACACATAGTGC
17074038 TGAAATTTCT
Statistics
Matches: 71, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
24 51 0.72
25 20 0.28
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (24 bp):
TCGCACACATAGTGCCACGTAATC
Found at i:17074030 original size:49 final size:48
Alignment explanation
Indices: 17073926--17074037 Score: 127
Period size: 49 Copynumber: 2.3 Consensus size: 48
17073916 TCTTACTCAT
* ** *
17073926 TCGCACACATAGTGCCACGTTTCCTCGCACACATAGTGCTATGTAATC
1 TCGCACACATAGTGCCACGTTTCCTCGCACACATAGTGCCACATAACC
* * *
17073974 TCGCACACATAGTGCCACGTAGTT-TTTGCACACATAGTGCCGCATAACC
1 TCGCACACATAGTGCCACGT--TTCCTCGCACACATAGTGCCACATAACC
*
17074023 TCTCACACATAGTGC
1 TCGCACACATAGTGC
17074038 TGAAATTTCT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
48 20 0.37
49 32 0.59
50 2 0.04
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (48 bp):
TCGCACACATAGTGCCACGTTTCCTCGCACACATAGTGCCACATAACC
Found at i:17076739 original size:93 final size:93
Alignment explanation
Indices: 17076580--17076750 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
17076570 GCCCATAAGT
*
17076580 GAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
17076645 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
17076673 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
17076738 CGAGTTCGGATGC
66 CGAGCTCGGATGC
17076751 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:17076747 original size:46 final size:46
Alignment explanation
Indices: 17076572--17076747 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
17076562 TGTAACCCGC
* * *
17076572 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* *
17076618 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* *
17076668 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
*
17076711 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
17076748 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
46 64 0.58
47 28 0.25
49 1 0.01
50 7 0.06
51 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:17079220 original size:14 final size:14
Alignment explanation
Indices: 17079180--17079221 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
17079170 AATCCATTTG
17079180 TATCTCATTTCTTT-
1 TATCTC-TTTCTTTA
17079194 TAT-TCTATTCTTTA
1 TATCTCT-TTCTTTA
17079208 TATCTCTTTCTTTA
1 TATCTCTTTCTTTA
17079222 ACATTGTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 1 0.04
13 8 0.32
14 13 0.52
15 3 0.12
ACGTcount: A:0.17, C:0.19, G:0.00, T:0.64
Consensus pattern (14 bp):
TATCTCTTTCTTTA
Found at i:17083123 original size:20 final size:20
Alignment explanation
Indices: 17083084--17083123 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
17083074 AAACTTCTTC
* *
17083084 ACTTACTCACTTATTTAAAT
1 ACTTACTCACTTAATCAAAT
*
17083104 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
17083124 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.20, G:0.00, T:0.42
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:17083498 original size:55 final size:53
Alignment explanation
Indices: 17083373--17083505 Score: 160
Period size: 55 Copynumber: 2.5 Consensus size: 53
17083363 CTTACCATTT
*
17083373 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCATTATGAACTCACCAATG
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCATTATGAACTCACCAATG
* * * * * * *
17083426 CCAAGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTGTAGTAACTTATCAATG
1 CCATGTCTTGACATGGTCTTACATGGGATCC-TTGCATTAT-G-AACTCACCAATG
17083481 CCATGTCTTGACATGGTCTTACATG
1 CCATGTCTTGACATGGTCTTACATG
17083506 ATTTCCTTGC
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
52 2 0.03
53 31 0.47
54 1 0.02
55 32 0.48
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.34
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGGGATCCTTGCATTATGAACTCACCAATG
Found at i:17083516 original size:55 final size:52
Alignment explanation
Indices: 17083373--17083569 Score: 157
Period size: 55 Copynumber: 3.6 Consensus size: 52
17083363 CTTACCATTT
*
17083373 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCATTATGAACTCACCAATG
1 CCATGTCTTGACATGGTCTTACAT-GTATCCTTGCCTTATGAACTCACCAATG
* * * * * * *
17083426 CCAAGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTGTAGTAACTTATCAATG
1 CCATGTCTTGACATGGTCTTACAT-GTATCC-TTGCCTTAT-G-AACTCACCAATG
* * *
17083481 CCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAACCTTACCAATTT
1 CCATGTCTTGACATGGTCTTACATG-TATCCTTGCCTTATG-AA-CTCACCAA-TG
**
17083536 CCATACCTT-AGCATGGTCTTACATGGTATCCTTG
1 CCATGTCTTGA-CATGGTCTTACAT-GTATCCTTG
17083570 AACCATAATG
Statistics
Matches: 115, Mismatches: 20, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
52 2 0.02
53 34 0.30
54 10 0.09
55 66 0.57
56 3 0.03
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (52 bp):
CCATGTCTTGACATGGTCTTACATGTATCCTTGCCTTATGAACTCACCAATG
Found at i:17085750 original size:40 final size:40
Alignment explanation
Indices: 17085686--17085887 Score: 275
Period size: 40 Copynumber: 5.0 Consensus size: 40
17085676 TAGGATTTAA
* *
17085686 CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACTTAGC
1 CCGGATATAG-TAACTCACACAAATGCCTTCGGGACTTAGC
*
17085726 CCGGATATAGTAACTCACATAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGC
17085766 CCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGC
* *
17085806 CCGGATATAGTAACTCGCACAAACGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGC
* * **
17085846 CC-GAAACTAGTCACT-AGCGTAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCA-CACAAATGCCTTCGGGACTTAGC
17085886 CC
1 CC
17085888 AGTTATCATC
Statistics
Matches: 147, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
39 4 0.03
40 143 0.97
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGC
Found at i:17093871 original size:40 final size:40
Alignment explanation
Indices: 17093808--17094011 Score: 297
Period size: 40 Copynumber: 5.1 Consensus size: 40
17093798 TGGGATTTAA
* *
17093808 CCGGATATAGCT-ACACGCTCAAATGCCTTCGGGACTTAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
17093848 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
17093888 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
17093928 CCGGATATAGTAACTCAG-ACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTC-GCACAAATGCCTTCGGGACTTAGC
* * ** *
17093968 CCGGA-ACTAGTCACTAGCGTAAATGCCTTTGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
17094008 CCGG
1 CCGG
17094012 TTATCATCCA
Statistics
Matches: 153, Mismatches: 7, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
39 3 0.02
40 149 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:17121469 original size:40 final size:40
Alignment explanation
Indices: 17121414--17121564 Score: 189
Period size: 40 Copynumber: 3.8 Consensus size: 40
17121404 GGATATAACT
* *
17121414 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-GAGTA
* *
17121454 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTGAGTA
* *
17121494 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGATT-AGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTGAGTA
* ** *
17121533 ACTAGTGCAGATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
17121565 TTATCATCCA
Statistics
Matches: 98, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
39 30 0.31
40 66 0.67
41 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTGAGTA
Found at i:17127908 original size:29 final size:29
Alignment explanation
Indices: 17127838--17127949 Score: 102
Period size: 29 Copynumber: 3.9 Consensus size: 29
17127828 ACCCCTACAT
*
17127838 ACATGCATATGGCCCACTAGGCCCAA-TC
1 ACATTCATATGGCCCACTAGGCCCAATTC
** * * *
17127866 TTATTCAAATGGCCCTTCT-GGCCCAGTTC
1 ACATTCATATGGCCC-ACTAGGCCCAATTC
* *
17127895 ATATTCTTATGGCCCACTAGGCCCAATTC
1 ACATTCATATGGCCCACTAGGCCCAATTC
* * *
17127924 ACATTCATATGGTCCATTATGCCCAA
1 ACATTCATATGGCCCACTAGGCCCAA
17127950 ATCATAATTC
Statistics
Matches: 65, Mismatches: 16, Indels: 5
0.76 0.19 0.06
Matches are distributed among these distances:
28 19 0.29
29 46 0.71
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAATTC
Found at i:17132316 original size:29 final size:30
Alignment explanation
Indices: 17132250--17132368 Score: 133
Period size: 29 Copynumber: 4.2 Consensus size: 30
17132240 TACATACATG
* * *
17132250 CATATGGCCCA-CTAGGCCCTA-TCTTTTT
1 CATATGGCCCATCTAGGCCCAATTCATATT
*
17132278 CAAATGGCCCATCT-GGCCCAATTCATATT
1 CATATGGCCCATCTAGGCCCAATTCATATT
* *
17132307 CTTATGGCCC-TCTAGGCCCAATTCTTATT
1 CATATGGCCCATCTAGGCCCAATTCATATT
*
17132336 CATATGGCCCAT-TAGGCCCAAATCATATT
1 CATATGGCCCATCTAGGCCCAATTCATATT
17132365 -ATAT
1 CATAT
17132369 TCATGCTCAC
Statistics
Matches: 77, Mismatches: 10, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
28 23 0.30
29 53 0.69
30 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.13, T:0.33
Consensus pattern (30 bp):
CATATGGCCCATCTAGGCCCAATTCATATT
Found at i:17132356 original size:58 final size:57
Alignment explanation
Indices: 17132252--17132364 Score: 156
Period size: 58 Copynumber: 2.0 Consensus size: 57
17132242 CATACATGCA
* * *
17132252 TATGGCCCACTAGGCCCTATCTTTTTCAAATGGCCCATCTGGCCCAATTCATATTCT
1 TATGGCCCACTAGGCCCAATCTTATTCAAATGGCCCATCTGGCCCAAATCATATTCT
* *
17132309 TATGGCCCTCTAGGCCCAATTCTTATTCATATGGCCCAT-TAGGCCCAAATCATATT
1 TATGGCCCACTAGGCCCAA-TCTTATTCAAATGGCCCATCT-GGCCCAAATCATATT
17132365 ATATTCATGC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
57 18 0.37
58 31 0.63
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.33
Consensus pattern (57 bp):
TATGGCCCACTAGGCCCAATCTTATTCAAATGGCCCATCTGGCCCAAATCATATTCT
Found at i:17132598 original size:8 final size:8
Alignment explanation
Indices: 17132571--17132621 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
17132561 GTAGCCCAAC
17132571 TTTCGGCT
1 TTTCGGCT
* *
17132579 TTTCAGCA
1 TTTCGGCT
17132587 TTTCGGCT
1 TTTCGGCT
*
17132595 TTTCGACT
1 TTTCGGCT
*
17132603 TTTTGGCAT
1 TTTCGGC-T
17132612 TTT-GGCT
1 TTTCGGCT
17132619 TTT
1 TTT
17132622 GCCGATTCAT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
7 4 0.11
8 27 0.77
9 4 0.11
ACGTcount: A:0.08, C:0.20, G:0.20, T:0.53
Consensus pattern (8 bp):
TTTCGGCT
Found at i:17132604 original size:24 final size:24
Alignment explanation
Indices: 17132571--17132621 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
17132561 GTAGCCCAAC
*
17132571 TTTCGGCTTTTCAGCATTTCGGCT
1 TTTCGACTTTTCAGCATTTCGGCT
** *
17132595 TTTCGACTTTTTGGCATTTTGGCT
1 TTTCGACTTTTCAGCATTTCGGCT
17132619 TTT
1 TTT
17132622 GCCGATTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.08, C:0.20, G:0.20, T:0.53
Consensus pattern (24 bp):
TTTCGACTTTTCAGCATTTCGGCT
Found at i:17133865 original size:16 final size:16
Alignment explanation
Indices: 17133844--17133876 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
17133834 AAAAATTCAA
17133844 GATTTCGGGATTTTTG
1 GATTTCGGGATTTTTG
17133860 GATTTCGGGATTTTTG
1 GATTTCGGGATTTTTG
17133876 G
1 G
17133877 GGCGTTACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.06, G:0.33, T:0.48
Consensus pattern (16 bp):
GATTTCGGGATTTTTG
Found at i:17145237 original size:19 final size:19
Alignment explanation
Indices: 17145195--17145235 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
17145185 AGAAAAAGTG
17145195 AAAAGTAAGAACGAGAAGA
1 AAAAGTAAGAACGAGAAGA
17145214 AAAAGTACAGAAC-A-AAGA
1 AAAAGTA-AGAACGAGAAGA
17145232 AAAA
1 AAAA
17145236 AGCATTGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.68, C:0.07, G:0.20, T:0.05
Consensus pattern (19 bp):
AAAAGTAAGAACGAGAAGA
Found at i:17148109 original size:16 final size:15
Alignment explanation
Indices: 17148086--17148159 Score: 53
Period size: 16 Copynumber: 4.7 Consensus size: 15
17148076 CAAAAAAGTA
17148086 ATAA-AAATAATAAT
1 ATAATAAATAATAAT
*
17148100 CATAATAAATAACAAAT
1 -ATAATAAATAA-TAAT
* * *
17148117 ATAATGAAGAATAAC
1 ATAATAAATAATAAT
17148132 AGTAAT-AATAATGAAT
1 A-TAATAAATAAT-AAT
17148148 ACTAATAAATAA
1 A-TAATAAATAA
17148160 ATAAATAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
15 12 0.26
16 26 0.57
17 8 0.17
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (15 bp):
ATAATAAATAATAAT
Found at i:17148131 original size:19 final size:21
Alignment explanation
Indices: 17148107--17148146 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
17148097 AATCATAATA
17148107 AATAACA-AAT-ATAATGAAG
1 AATAACAGAATAATAATGAAG
17148126 AATAACAGTAATAATAATGAA
1 AATAACAG-AATAATAATGAA
17148147 TACTAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
21 3 0.17
22 8 0.44
ACGTcount: A:0.62, C:0.05, G:0.10, T:0.23
Consensus pattern (21 bp):
AATAACAGAATAATAATGAAG
Found at i:17150063 original size:27 final size:27
Alignment explanation
Indices: 17150032--17150290 Score: 340
Period size: 27 Copynumber: 9.6 Consensus size: 27
17150022 TTAGTTTACC
*
17150032 AAATTACCAAAAAACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * **
17150059 AAATTACCAAAATACCCTTAGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
17150086 AAATTACC-AAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
17150112 AAATTACTAAAATACCCTTAGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
17150139 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
17150166 AAATTACCAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
17150193 AAATTACCAAAATACCCATGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
17150220 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
17150247 AAATTACCAAAATACCTCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
17150274 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
17150291 TCGACCTTTA
Statistics
Matches: 199, Mismatches: 32, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 21 0.11
27 178 0.89
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:17150178 original size:54 final size:54
Alignment explanation
Indices: 17150022--17150361 Score: 400
Period size: 54 Copynumber: 6.3 Consensus size: 54
17150012 TTAGAATACT
** *
17150022 TTAGTTTACCAAATTACCAAAAAACCCCTGGTTTGTAAAATTACCAAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC
* *
17150076 TTAGTTTACAAAATTACC-AAATACCCCTGGTTTGTAAAATTACTAAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC
*
17150129 TTAGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC
* *
17150183 TTGGTTTATAAAATTACCAAAATACCCATGGTTTGTAAAATTACCAAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC
* * * * * **
17150237 CTAGTTTGTAAAATTACCAAAATACCTCTGATTTGTGAAATTACTGAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC
* ** ** * ** *
17150291 TCGACCTT-TAAAATTACTGAAATACCTC-GACTTGTAAAATTACCAAAGTACCC
1 T-TAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC
* *
17150344 -TCGATTTATAGAATTACC
1 TTAG-TTTATAAAATTACC
17150362 GTTTTACCCT
Statistics
Matches: 247, Mismatches: 35, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
52 2 0.01
53 77 0.31
54 165 0.67
55 3 0.01
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (54 bp):
TTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC
Found at i:17150303 original size:81 final size:80
Alignment explanation
Indices: 17150032--17150360 Score: 326
Period size: 81 Copynumber: 4.1 Consensus size: 80
17150022 TTAGTTTACC
* * * * **
17150032 AAATTACCAAAAAACCCCTG-GTTTGTAAAATTACCAAAATACCCTTAGTTTACAAAATTACC-A
1 AAATTACTAAAATA-CCCTGAGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
*
17150095 AATACCCCTGGTTTGTA
65 AATA-CCCTGATTTGTA
* * *
17150112 AAATTACTAAAATACCCTTAGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAA
1 AAATTACTAAAATACCCTGAGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
* *
17150177 ATACCCTTGGTTTATA
66 ATACCC-TGATTTGTA
* *
17150193 AAATTACCAAAATACCCATG-GTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAATTACTAAAATACCC-TGAGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
*
17150257 AATACCTCTGATTTGTG
65 AATACC-CTGATTTGTA
* ** ** * * *
17150274 AAATTACTGAAATACCCTCGACCTT-TAAAATTACTGAAATACCTCGA-CTTGTAAAATTACCAA
1 AAATTACTAAAATACCCT-GAGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
* *
17150337 AGTACCCTCGATTTATA
65 AATACCCT-GATTTGTA
*
17150354 GAATTAC
1 AAATTAC
17150361 CGTTTTACCC
Statistics
Matches: 210, Mismatches: 31, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
79 6 0.03
80 84 0.40
81 116 0.55
82 4 0.02
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (80 bp):
AAATTACTAAAATACCCTGAGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
ATACCCTGATTTGTA
Found at i:17150358 original size:27 final size:27
Alignment explanation
Indices: 17150032--17150361 Score: 268
Period size: 27 Copynumber: 12.3 Consensus size: 27
17150022 TTAGTTTACC
* *
17150032 AAATTACCAAAAAACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* **
17150059 AAATTACCAAAATACCCT-TAGTTTACA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
17150086 AAATTACC-AAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * *
17150112 AAATTACTAAAATACCCT-TAGTTTATA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* *
17150139 AAATCACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * *
17150166 AAATTACCAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
*
17150193 AAATTACCAAAATACCCAT-GGTTTGTA
1 AAATTACCAAAATACCC-TCGATTTGTA
*
17150220 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
17150247 AAATTACCAAAATA-CCTCTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
** *
17150274 AAATTACTGAAATACCCTCGACCTT-TA
1 AAATTACCAAAATACCCTCGA-TTTGTA
** *
17150301 AAATTACTGAAATA-CCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
17150327 AAATTACCAAAGTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
*
17150354 GAATTACC
1 AAATTACC
17150362 GTTTTACCCT
Statistics
Matches: 248, Mismatches: 36, Indels: 38
0.77 0.11 0.12
Matches are distributed among these distances:
25 3 0.01
26 40 0.16
27 197 0.79
28 8 0.03
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:17150369 original size:27 final size:27
Alignment explanation
Indices: 17150339--17150667 Score: 381
Period size: 27 Copynumber: 12.2 Consensus size: 27
17150329 ATTACCAAAG
* * *
17150339 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
17150366 TACCCTTGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* * ***
17150393 TACCCTCAATTTACAGAATTATTGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* * *
17150420 TACCCTCAATTTAAAAAATTATCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* * **
17150447 TACTCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCATTT
*
17150474 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACCATTT
*
17150501 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACCATTT
*
17150528 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
17150555 TATCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
17150582 TACCCTCAATTTA-AAGAATTACTATTT
1 TACCCTCGATTTACAA-AATTACCATTT
* * *
17150609 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
17150636 TACCCTCGATTTATAAAATTATCATTT
1 TACCCTCGATTTACAAAATTACCATTT
17150663 TACCC
1 TACCC
17150668 CTAGGGTGTT
Statistics
Matches: 264, Mismatches: 36, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
26 1 0.00
27 262 0.99
28 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCATTT
Found at i:17150398 original size:54 final size:54
Alignment explanation
Indices: 17150339--17150667 Score: 435
Period size: 54 Copynumber: 6.1 Consensus size: 54
17150329 ATTACCAAAG
* * *
17150339 TACCCTCGATTTATAGAATTACCGTTTTACCCTTGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTT
* ** * * *
17150393 TACCCTCAATTTACAGAATTATTGTTTTACCCTCAATTTAAAAAATTATCATTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTT
* * *
17150447 TACTCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTT
* ** *
17150501 TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTT
* * * *
17150555 TATCCTCGATTTACAGAATTACCATTTTACCCTCAATTTA-AAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAA-AATTACCATTT
* * *
17150609 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTATCATTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTT
17150663 TACCC
1 TACCC
17150668 CTAGGGTGTT
Statistics
Matches: 244, Mismatches: 29, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
53 2 0.01
54 240 0.98
55 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.41
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTT
Found at i:17150948 original size:27 final size:26
Alignment explanation
Indices: 17150904--17150954 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
17150894 CTCGCTGCAA
*
17150904 TCTGGTGGCCTCGCCACATATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
17150931 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
17150955 GGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:17151113 original size:6 final size:6
Alignment explanation
Indices: 17151078--17151167 Score: 69
Period size: 6 Copynumber: 14.7 Consensus size: 6
17151068 ATTCACATTA
* * * *
17151078 TGATTT TGATTC TG-TTACC TGATAC TGATTC TGATTC TAATTC TG-TCACC
1 TGATTC TGATTC TGATT--C TGATTC TGATTC TGATTC TGATTC TGAT--TC
*
17151128 TGATTC TGATTC TGATTT TGATTC TGATTC T-AGTTC TGAT
1 TGATTC TGATTC TGATTC TGATTC TGATTC TGA-TTC TGAT
17151168 AATGTTTCTT
Statistics
Matches: 67, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
5 4 0.06
6 54 0.81
7 7 0.10
8 2 0.03
ACGTcount: A:0.19, C:0.17, G:0.16, T:0.49
Consensus pattern (6 bp):
TGATTC
Found at i:17151121 original size:31 final size:31
Alignment explanation
Indices: 17151086--17151153 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
17151076 TATGATTTTG
*
17151086 ATTCTGTTACCTGATACTGATTCTGATTCTA
1 ATTCTGTCACCTGATACTGATTCTGATTCTA
* * *
17151117 ATTCTGTCACCTGATTCTGATTCTGATTTTG
1 ATTCTGTCACCTGATACTGATTCTGATTCTA
17151148 ATTCTG
1 ATTCTG
17151154 ATTCTAGTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (31 bp):
ATTCTGTCACCTGATACTGATTCTGATTCTA
Found at i:17156684 original size:13 final size:13
Alignment explanation
Indices: 17156666--17156692 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17156656 GCCCGGTAGG
17156666 GACACGCCCGTGT
1 GACACGCCCGTGT
17156679 GACACGCCCGTGT
1 GACACGCCCGTGT
17156692 G
1 G
17156693 CGATTGCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:17165311 original size:49 final size:49
Alignment explanation
Indices: 17165251--17165660 Score: 644
Period size: 49 Copynumber: 8.6 Consensus size: 49
17165241 GATAATTGTG
* *
17165251 ATGTG-AA-TGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
17165298 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
17165347 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
17165396 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
17165445 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
17165494 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
17165541 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
17165588 ATGTGAAAGTG--TATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATATGTGATAAG-GCCTAATGGCCGATGTGATGA
17165635 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
17165661 TCCCGAAGGG
Statistics
Matches: 345, Mismatches: 12, Indels: 11
0.94 0.03 0.03
Matches are distributed among these distances:
46 2 0.01
47 140 0.41
48 5 0.01
49 198 0.57
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:17167856 original size:38 final size:38
Alignment explanation
Indices: 17167792--17167866 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
17167782 AATCCGAGTT
*
17167792 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
17167830 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
17167867 ATTAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:17167983 original size:40 final size:40
Alignment explanation
Indices: 17167920--17168061 Score: 232
Period size: 40 Copynumber: 3.6 Consensus size: 40
17167910 AGGTCTCGAC
*
17167920 GATG-ATCCGGGCTAAGTCACGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
17167959 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
17167999 GATGTATCCGGGCTAAGTCCTGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * *
17168039 GTTGTATCCGGACTAAGTTCCGA
1 GATGTATCCGGGCTAAGTCCCGA
17168062 CCGGACTAAG
Statistics
Matches: 96, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 4 0.04
40 92 0.96
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:17168067 original size:16 final size:16
Alignment explanation
Indices: 17168046--17168077 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
17168036 AGTGTTGTAT
17168046 CCGGACTAAGTTCCGA
1 CCGGACTAAGTTCCGA
17168062 CCGGACTAAGTTCCGA
1 CCGGACTAAGTTCCGA
17168078 AGAGCATTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.31, G:0.25, T:0.19
Consensus pattern (16 bp):
CCGGACTAAGTTCCGA
Found at i:17168135 original size:96 final size:96
Alignment explanation
Indices: 17167966--17168157 Score: 312
Period size: 96 Copynumber: 2.0 Consensus size: 96
17167956 AGTGATGTAT
* * * **
17167966 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCTGAAGAGCATTC
1 CCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCAAAGAGCATTC
* *
17168031 GTGCTAGTGTTGTATCCGGACTAAGTTCCGA
66 ATGCTAGTGATGTATCCGGACTAAGTTCCGA
*
17168062 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCAAAGAGCATTC
1 CCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCAAAGAGCATTC
17168127 ATGCTAGTGATGTATCCGGACTAAGTTCCGA
66 ATGCTAGTGATGTATCCGGACTAAGTTCCGA
17168158 AGAGCATTCG
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 88 1.00
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (96 bp):
CCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCAAAGAGCATTC
ATGCTAGTGATGTATCCGGACTAAGTTCCGA
Found at i:17168175 original size:136 final size:136
Alignment explanation
Indices: 17167926--17168197 Score: 424
Period size: 136 Copynumber: 2.0 Consensus size: 136
17167916 CGACGATGAT
* * * *
17167926 CCGGGCTAAGTCACGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTC
1 CCGGACTAAGTCACGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCAAAGAGCATTC
* * * *
17167991 GTGCTAGTGATGTATCCGGGCTAAGTCCTGAAGAGCATTCGTGCTAGTGTTGTATCCG-GACTAA
66 ATGCTAGTGATGTATCCGGACTAAGTCCTGAAGAGCATTCGTGCTAGTGATATATCCGTG-CTAA
17168055 GTTCCGA
130 GTTCCGA
17168062 CCGGACTAAGTTC-CGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCAAAGAGCATT
1 CCGGACTAAG-TCACGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCAAAGAGCATT
17168126 CATGCTAGTGATGTATCCGGACTAAGTTCC-GAAGAGCATTCGTGCTAGTGATATATCCGTGCTA
65 CATGCTAGTGATGTATCCGGACTAAG-TCCTGAAGAGCATTCGTGCTAGTGATATATCCGTGCTA
17168190 AGTTCCGA
129 AGTTCCGA
17168198 AGAGCATTCG
Statistics
Matches: 125, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
136 119 0.95
137 6 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (136 bp):
CCGGACTAAGTCACGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCAAAGAGCATTC
ATGCTAGTGATGTATCCGGACTAAGTCCTGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAG
TTCCGA
Found at i:17168255 original size:40 final size:40
Alignment explanation
Indices: 17168062--17168243 Score: 247
Period size: 40 Copynumber: 4.5 Consensus size: 40
17168052 TAAGTTCCGA
* *
17168062 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
* * * *
17168102 CCGGGCTAAATCCCAAAGAGCATTCATGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
* *
17168142 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
* * * *
17168182 CCGTGCTAAGTTCCGAAGAGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
*
17168222 CCGGGCTAGGTCCCGAAGAGCA
1 CCGGGCTAAGTCCCGAAGAGCA
17168244 ATCATGCTGG
Statistics
Matches: 123, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 123 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
Found at i:17171891 original size:47 final size:47
Alignment explanation
Indices: 17171839--17172243 Score: 611
Period size: 49 Copynumber: 8.6 Consensus size: 47
17171829 GATAATTGTG
* *
17171839 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
17171886 ATGTGAAAGTGTATATATGTGATTAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
17171933 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
17171982 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
17172031 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
17172080 ATGTGAAAGTGTATATATGTGAT-AGGCCTAAT--CCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
17172124 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
17172171 ATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATGA
*
17172218 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
17172244 TCCCGAAGGG
Statistics
Matches: 337, Mismatches: 14, Indels: 13
0.93 0.04 0.04
Matches are distributed among these distances:
44 35 0.10
45 9 0.03
46 11 0.03
47 137 0.41
48 2 0.01
49 143 0.42
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:17174842 original size:17 final size:17
Alignment explanation
Indices: 17174820--17174861 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
17174810 ATTTGACCAT
17174820 GGAACAGTTAGGAAACA
1 GGAACAGTTAGGAAACA
17174837 GGAACAGTTAGGAAACA
1 GGAACAGTTAGGAAACA
*
17174854 GCAACAGT
1 GGAACAGT
17174862 GATGTGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.45, C:0.14, G:0.29, T:0.12
Consensus pattern (17 bp):
GGAACAGTTAGGAAACA
Found at i:17187773 original size:23 final size:24
Alignment explanation
Indices: 17187743--17187796 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 24
17187733 AGGAAAGCCT
17187743 CATT-CTATTG-TCATACCCATGC
1 CATTACTATTGCTCATACCCATGC
* *
17187765 CATTACTA-TGCTCATTCTCATGC
1 CATTACTATTGCTCATACCCATGC
*
17187788 TATTACTAT
1 CATTACTAT
17187797 GCTAATGTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 6 0.23
23 20 0.77
ACGTcount: A:0.24, C:0.28, G:0.07, T:0.41
Consensus pattern (24 bp):
CATTACTATTGCTCATACCCATGC
Found at i:17189153 original size:6 final size:6
Alignment explanation
Indices: 17189144--17189210 Score: 109
Period size: 6 Copynumber: 11.3 Consensus size: 6
17189134 GATGATGATG
* *
17189144 TTTAAT TTTA-T TTTATC TTTATT TTTATT TTTATT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
17189191 TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TT
17189211 ATGTTTTTAA
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
5 5 0.09
6 53 0.91
ACGTcount: A:0.18, C:0.01, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTATT
Found at i:17194955 original size:50 final size:50
Alignment explanation
Indices: 17194888--17195111 Score: 340
Period size: 50 Copynumber: 4.5 Consensus size: 50
17194878 CGATAATATG
*
17194888 ATCGGCACAAAGCCATCGATAATAGATCGGCACATAGCCATCAATATCAT
1 ATCGGCACAAAGCCATCGATAACAGATCGGCACATAGCCATCAATATCAT
* *
17194938 ATCAGCACAAAGCCATCGATAACAGATCGGCACATAGCCATCAATATCGT
1 ATCGGCACAAAGCCATCGATAACAGATCGGCACATAGCCATCAATATCAT
* * * *
17194988 ATCGGCACAAAGTCATCGATAACAGATCGGAACATAGCCGTCATTATCAT
1 ATCGGCACAAAGCCATCGATAACAGATCGGCACATAGCCATCAATATCAT
* * *
17195038 ATCGGCACAAAGCCATCGATAACAGATCGGCAAAAAGCCATGAATATCAT
1 ATCGGCACAAAGCCATCGATAACAGATCGGCACATAGCCATCAATATCAT
* *
17195088 ATCGGTACAAAGCCATCAATAACA
1 ATCGGCACAAAGCCATCGATAACA
17195112 TACAAGCATG
Statistics
Matches: 156, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 156 1.00
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (50 bp):
ATCGGCACAAAGCCATCGATAACAGATCGGCACATAGCCATCAATATCAT
Found at i:17195113 original size:25 final size:25
Alignment explanation
Indices: 17194888--17195178 Score: 260
Period size: 25 Copynumber: 11.6 Consensus size: 25
17194878 CGATAATATG
* * *
17194888 ATCGGCACAAAGCCATCGATAATAG
1 ATCGGCACAAAGCCATCAATAACAT
* *
17194913 ATCGGCACATAGCCATCAATATCAT
1 ATCGGCACAAAGCCATCAATAACAT
* * *
17194938 ATCAGCACAAAGCCATCGATAACAG
1 ATCGGCACAAAGCCATCAATAACAT
* * *
17194963 ATCGGCACATAGCCATCAATATCGT
1 ATCGGCACAAAGCCATCAATAACAT
* * *
17194988 ATCGGCACAAAGTCATCGATAACAG
1 ATCGGCACAAAGCCATCAATAACAT
* * * * *
17195013 ATCGGAACATAGCCGTCATTATCAT
1 ATCGGCACAAAGCCATCAATAACAT
* *
17195038 ATCGGCACAAAGCCATCGATAACAG
1 ATCGGCACAAAGCCATCAATAACAT
* * *
17195063 ATCGGCAAAAAGCCATGAATATCAT
1 ATCGGCACAAAGCCATCAATAACAT
*
17195088 ATCGGTACAAAGCCATCAATAACAT
1 ATCGGCACAAAGCCATCAATAACAT
* ** * *
17195113 A-CAAGCATGAAGCCTTCAATAGCAT
1 ATC-GGCACAAAGCCATCAATAACAT
* * *
17195138 ATTGGCACAAAGCCTTCAATAGCAT
1 ATCGGCACAAAGCCATCAATAACAT
*
17195163 ATCAGCACAAAGCCAT
1 ATCGGCACAAAGCCAT
17195179 AATCAGAATA
Statistics
Matches: 205, Mismatches: 59, Indels: 4
0.76 0.22 0.01
Matches are distributed among these distances:
24 1 0.00
25 204 1.00
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.19
Consensus pattern (25 bp):
ATCGGCACAAAGCCATCAATAACAT
Found at i:17195139 original size:100 final size:99
Alignment explanation
Indices: 17194888--17195178 Score: 325
Period size: 100 Copynumber: 2.9 Consensus size: 99
17194878 CGATAATATG
* * * *
17194888 ATCGGCACAAAGCCATCGATAATAGATCGGCACATAGCCATCAATATCATATCAGCACAAAGCCA
1 ATCGGCACAAAGCCATCAATAACAGATC-GAACATAGCCATCAATATCATATCGGCACAAAGCCA
* *
17194953 TCGATAACAGATCGGCACATAGCCATCAATATCGT
65 TCGATAACAGATCGGCACAAAGCCATCAATATCAT
* * * *
17194988 ATCGGCACAAAGTCATCGATAACAGATCGGAACATAGCCGTCATTATCATATCGGCACAAAGCCA
1 ATCGGCACAAAGCCATCAATAACAGATC-GAACATAGCCATCAATATCATATCGGCACAAAGCCA
* *
17195053 TCGATAACAGATCGGCAAAAAGCCATGAATATCAT
65 TCGATAACAGATCGGCACAAAGCCATCAATATCAT
* * * * *
17195088 ATCGGTACAAAGCCATCAATAACATA-C-AAGCATGAAGCCTTCAATAGCATATTGGCACAAAGC
1 ATCGGCACAAAGCCATCAATAACAGATCGAA-CAT--AGCCATCAATATCATATCGGCACAAAGC
* * * * *
17195151 CTTCAATAGCATATCAGCACAAAGCCAT
63 CATCGATAACAGATCGGCACAAAGCCAT
17195179 AATCAGAATA
Statistics
Matches: 164, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
97 2 0.01
98 3 0.02
99 1 0.01
100 158 0.96
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.19
Consensus pattern (99 bp):
ATCGGCACAAAGCCATCAATAACAGATCGAACATAGCCATCAATATCATATCGGCACAAAGCCAT
CGATAACAGATCGGCACAAAGCCATCAATATCAT
Found at i:17195447 original size:41 final size:41
Alignment explanation
Indices: 17195325--17195435 Score: 150
Period size: 41 Copynumber: 2.7 Consensus size: 41
17195315 TAAAAGCCAC
* *
17195325 CGGTGGATCCACGATCGTCAAGCAACCATGCGATCCTTAAT
1 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
* ** * *
17195366 CGATGGATCCATAGTCGTTAAGCGACCATGCGATCCTCAAT
1 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
*
17195407 CGGTGGATCCACGGTTGTCAAGCAACCAT
1 CGGTGGATCCACGGTCGTCAAGCAACCAT
17195436 ATGATTCTCA
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (41 bp):
CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
Found at i:17195739 original size:27 final size:27
Alignment explanation
Indices: 17195705--17195943 Score: 191
Period size: 27 Copynumber: 8.9 Consensus size: 27
17195695 GGTAAATCTA
*
17195705 CAAACCAAGGGTATTTCGATAATTTTG
1 CAAATCAAGGGTATTTCGATAATTTTG
** * *
17195732 CAAGCCAATGGTATTTCTG-TAATTTTT
1 CAAATCAAGGGTATTTC-GATAATTTTG
* * *
17195759 TAAAGTTAAGGGTATTTTG-TAATTTTG
1 CAAA-TCAAGGGTATTTCGATAATTTTG
* * *
17195786 TAAATCAAGGGTATTTTTG-TAATTTTC
1 CAAATCAAGGGTA-TTTCGATAATTTTG
* *
17195813 CAAATCAAGGGTATTTTGATAATTTTC
1 CAAATCAAGGGTATTTCGATAATTTTG
* * * *
17195840 CAAATTAGGGGTATTTTGATAATTTTA
1 CAAATCAAGGGTATTTCGATAATTTTG
* *
17195867 CAAATCGAGGGTATTTCGGTAATTTTG
1 CAAATCAAGGGTATTTCGATAATTTTG
* *
17195894 TAAACCAAGGGTA-TTC-AGTAATTTTG
1 CAAATCAAGGGTATTTCGA-TAATTTTG
* * *
17195920 TAAACCAAGGGTATTTCAATAATT
1 CAAATCAAGGGTATTTCGATAATT
17195944 CTACCCTATA
Statistics
Matches: 179, Mismatches: 26, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
26 37 0.21
27 131 0.73
28 11 0.06
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.41
Consensus pattern (27 bp):
CAAATCAAGGGTATTTCGATAATTTTG
Found at i:17195799 original size:54 final size:54
Alignment explanation
Indices: 17195703--17195935 Score: 220
Period size: 54 Copynumber: 4.3 Consensus size: 54
17195693 TTGGTAAATC
* * * *
17195703 TACAAACCAAGGGTATTTCGATAATTTTGCAAGCCAATGGTATTTCTGTAATTT
1 TACAAATCAAGGGTATTTTGATAATTTTGCAAACCAAGGGTATTTCTGTAATTT
** * * * *
17195757 TTTAAAGTTAAGGGTATTTTG-TAATTTTGTAAATCAAGGGTATTTTTGTAATTT
1 TACAAA-TCAAGGGTATTTTGATAATTTTGCAAACCAAGGGTATTTCTGTAATTT
* * ** *
17195811 TCCAAATCAAGGGTATTTTGATAATTTTCCAAATTAGGGGTATTT-TGATAATTT
1 TACAAATCAAGGGTATTTTGATAATTTTGCAAACCAAGGGTATTTCTG-TAATTT
* * * * *
17195865 TACAAATCGAGGGTATTTCGGTAATTTTGTAAACCAAGGGTA-TTCAGTAATTT
1 TACAAATCAAGGGTATTTTGATAATTTTGCAAACCAAGGGTATTTCTGTAATTT
** *
17195918 TGTAAACCAAGGGTATTT
1 TACAAATCAAGGGTATTT
17195936 CAATAATTCT
Statistics
Matches: 144, Mismatches: 31, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
53 37 0.26
54 96 0.67
55 11 0.08
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.41
Consensus pattern (54 bp):
TACAAATCAAGGGTATTTTGATAATTTTGCAAACCAAGGGTATTTCTGTAATTT
Found at i:17195799 original size:81 final size:80
Alignment explanation
Indices: 17195684--17195935 Score: 249
Period size: 81 Copynumber: 3.1 Consensus size: 80
17195674 TTCAACCTAC
* * * * * * *
17195684 AAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCGATAATTTTGCAAGCCAATGGTATTTC
1 AAGGGTATTTTGATAATTTTACAAATCAAGGGTATTTCG-TAATTTTGCAAACCAAGGGTATTTC
*
17195749 TGTAATTTTTTAAAGTT
65 TGTAATTTTCTAAA-TT
** * * *
17195766 AAGGGTATTTTG-TAATTTTGTAAATCAAGGGTATTTTTGTAATTTTCCAAATCAAGGGTATTT-
1 AAGGGTATTTTGATAATTTTACAAATCAAGGGTA-TTTCGTAATTTTGCAAACCAAGGGTATTTC
*
17195829 TGATAATTTTCCAAATT
65 TG-TAATTTTCTAAATT
* * *
17195846 AGGGGTATTTTGATAATTTTACAAATCGAGGGTATTTCGGTAATTTTGTAAACCAAGGGTA-TTC
1 AAGGGTATTTTGATAATTTTACAAATCAAGGGTATTTC-GTAATTTTGCAAACCAAGGGTATTTC
* * **
17195910 AGTAATTTTGTAAACC
65 TGTAATTTTCTAAATT
17195926 AAGGGTATTT
1 AAGGGTATTT
17195936 CAATAATTCT
Statistics
Matches: 138, Mismatches: 27, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
80 39 0.28
81 84 0.61
82 15 0.11
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (80 bp):
AAGGGTATTTTGATAATTTTACAAATCAAGGGTATTTCGTAATTTTGCAAACCAAGGGTATTTCT
GTAATTTTCTAAATT
Found at i:17195956 original size:27 final size:27
Alignment explanation
Indices: 17195925--17196007 Score: 114
Period size: 27 Copynumber: 3.1 Consensus size: 27
17195915 TTTTGTAAAC
*
17195925 CAAGGGTATTTCAATAATTCTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
* *
17195952 TAA-GGAATTTCAGTAATTCTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
* *
17195978 CAAGGGTATTTCAGTAATACTAGCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
17196005 CAA
1 CAA
17196008 TATGAGATTC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 23 0.48
27 25 0.52
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.31
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTCTACCCTA
Found at i:17200171 original size:26 final size:26
Alignment explanation
Indices: 17200136--17200186 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
17200126 ATGTGAAAAG
*
17200136 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
17200162 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
17200187 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:17200274 original size:26 final size:26
Alignment explanation
Indices: 17200239--17200290 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
17200229 AATGTGAAAG
*
17200239 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
17200265 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
17200291 TTCAGCGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:17200301 original size:103 final size:104
Alignment explanation
Indices: 17200057--17200322 Score: 446
Period size: 103 Copynumber: 2.6 Consensus size: 104
17200047 TTGTATATAA
** *
17200057 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
17200121 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
65 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
*
17200161 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
17200226 TGAAATGTG-AAAGGGGGTTGCTATGTGCTGATTCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
** *
17200264 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
17200323 ATAACGGTTA
Statistics
Matches: 153, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 84 0.55
104 68 0.44
105 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:17207506 original size:105 final size:104
Alignment explanation
Indices: 17207378--17207645 Score: 448
Period size: 105 Copynumber: 2.6 Consensus size: 104
17207368 TTGTATATAA
** *
17207378 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
17207443 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
17207482 AGGGGTGTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATC
1 AGGGGT-TGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCG-TGATCCACCATATC
17207546 TTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
64 TTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
** *
17207587 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCA
17207646 ATAACGGTTA
Statistics
Matches: 153, Mismatches: 8, Indels: 6
0.92 0.05 0.04
Matches are distributed among these distances:
104 54 0.35
105 98 0.64
106 1 0.01
ACGTcount: A:0.18, C:0.21, G:0.31, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:17211256 original size:20 final size:20
Alignment explanation
Indices: 17211231--17211332 Score: 96
Period size: 20 Copynumber: 4.9 Consensus size: 20
17211221 TAGAGCATGA
* *
17211231 CACAAAGGCTAGCAGAATGC
1 CACAAAGGCTAACAGAATAC
** *
17211251 CACAAAGGCCTTATTAGAATAT
1 CACAAAGG-C-TAACAGAATAC
*
17211273 CACAAAGGCTAACAAAATAC
1 CACAAAGGCTAACAGAATAC
*
17211293 CACAAAGGCCATATCAGAATAC
1 CACAAAGG-C-TAACAGAATAC
*
17211315 CACAGAGGCTAACAGAAT
1 CACAAAGGCTAACAGAAT
17211333 GTCACAAAGA
Statistics
Matches: 66, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
20 31 0.47
21 4 0.06
22 31 0.47
ACGTcount: A:0.45, C:0.24, G:0.17, T:0.15
Consensus pattern (20 bp):
CACAAAGGCTAACAGAATAC
Found at i:17211283 original size:42 final size:42
Alignment explanation
Indices: 17211231--17211341 Score: 150
Period size: 42 Copynumber: 2.6 Consensus size: 42
17211221 TAGAGCATGA
* * * *
17211231 CACAAAGGCTAGCAGAATGCCACAAAGGCCTTATTAGAATAT
1 CACAAAGGCTAACAGAATGCCACAAAGGCCATATCAGAATAC
* *
17211273 CACAAAGGCTAACAAAATACCACAAAGGCCATATCAGAATAC
1 CACAAAGGCTAACAGAATGCCACAAAGGCCATATCAGAATAC
* *
17211315 CACAGAGGCTAACAGAATGTCACAAAG
1 CACAAAGGCTAACAGAATGCCACAAAG
17211342 ATCAAAATAC
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 59 1.00
ACGTcount: A:0.45, C:0.23, G:0.17, T:0.14
Consensus pattern (42 bp):
CACAAAGGCTAACAGAATGCCACAAAGGCCATATCAGAATAC
Found at i:17219761 original size:24 final size:23
Alignment explanation
Indices: 17219708--17219832 Score: 80
Period size: 23 Copynumber: 5.3 Consensus size: 23
17219698 CAGCTCGTAA
* *
17219708 GAGCTTACTGATATATCAGCTCATAA
1 GAGCTTACTCAT-T-TCAGCTCAT-T
*
17219734 GAGCTTACT-ATTTTTAGCTCATT
1 GAGCTTACTCA-TTTCAGCTCATT
17219757 GGAGCTTA-TCATTTCAGCTCATAT
1 -GAGCTTACTCATTTCAGCTCAT-T
* *
17219781 GAGCTTACT--GTTCAGCTCAATA
1 GAGCTTACTCATTTCAGCTC-ATT
* *
17219803 GAGCTTA-TCGTTTCAGCTCAATA
1 GAGCTTACTCATTTCAGCTC-ATT
17219826 GAGCTTA
1 GAGCTTA
17219833 TTGTCCATCA
Statistics
Matches: 85, Mismatches: 6, Indels: 19
0.77 0.05 0.17
Matches are distributed among these distances:
21 1 0.01
22 15 0.18
23 39 0.46
24 18 0.21
25 2 0.02
26 10 0.12
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (23 bp):
GAGCTTACTCATTTCAGCTCATT
Found at i:17219784 original size:23 final size:24
Alignment explanation
Indices: 17219723--17219833 Score: 112
Period size: 23 Copynumber: 4.8 Consensus size: 24
17219713 TACTGATATA
17219723 TCAGCTCATA-AGAGCTTA-CTATTT
1 TCAGCTCATATAGAGCTTATC-A-TT
* *
17219747 TTAGCTCAT-TGGAGCTTATCATT
1 TCAGCTCATATAGAGCTTATCATT
17219770 TCAGCTCATAT-GAGCTTA-C-TGT
1 TCAGCTCATATAGAGCTTATCAT-T
*
17219792 TCAGCTCA-ATAGAGCTTATCGTT
1 TCAGCTCATATAGAGCTTATCATT
17219815 TCAGCTCA-ATAGAGCTTAT
1 TCAGCTCATATAGAGCTTAT
17219834 TGTCCATCAG
Statistics
Matches: 77, Mismatches: 3, Indels: 15
0.81 0.03 0.16
Matches are distributed among these distances:
21 3 0.04
22 17 0.22
23 38 0.49
24 18 0.23
25 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (24 bp):
TCAGCTCATATAGAGCTTATCATT
Found at i:17219817 original size:45 final size:46
Alignment explanation
Indices: 17219723--17219832 Score: 134
Period size: 45 Copynumber: 2.4 Consensus size: 46
17219713 TACTGATATA
* * * * *
17219723 TCAGCTCATAAGAGCTTACTATTTTTAGCTCATTGGAGCTTATCATT
1 TCAGCTCATATGAGCTTAC-ATGTTCAGCTCAATAGAGCTTATCATT
*
17219770 TCAGCTCATATGAGCTTAC-TGTTCAGCTCAATAGAGCTTATCGTT
1 TCAGCTCATATGAGCTTACATGTTCAGCTCAATAGAGCTTATCATT
17219815 TCAGCTCA-ATAGAGCTTA
1 TCAGCTCATAT-GAGCTTA
17219833 TTGTCCATCA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
44 2 0.04
45 36 0.64
47 18 0.32
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.36
Consensus pattern (46 bp):
TCAGCTCATATGAGCTTACATGTTCAGCTCAATAGAGCTTATCATT
Found at i:17222554 original size:26 final size:26
Alignment explanation
Indices: 17222525--17222577 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
17222515 TCAAATTAGG
17222525 AAATAAAGATATTATGTATCTAATAT
1 AAATAAAGATATTATGTATCTAATAT
17222551 AAATAAAGATATTATGTATCTAATAT
1 AAATAAAGATATTATGTATCTAATAT
17222577 A
1 A
17222578 CTTTTTTTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.38
Consensus pattern (26 bp):
AAATAAAGATATTATGTATCTAATAT
Found at i:17223148 original size:11 final size:12
Alignment explanation
Indices: 17223108--17223151 Score: 54
Period size: 11 Copynumber: 3.6 Consensus size: 12
17223098 TTTGATACTC
17223108 TGTTTTCAAGATA
1 TGTTTT-AAGATA
*
17223121 TGTTTTTAAGTTA
1 TG-TTTTAAGATA
17223134 TGTTTTAA-ATA
1 TGTTTTAAGATA
17223145 TGTTTTA
1 TGTTTTA
17223152 CACGTGCTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 9 0.32
12 6 0.21
13 9 0.32
14 4 0.14
ACGTcount: A:0.27, C:0.02, G:0.14, T:0.57
Consensus pattern (12 bp):
TGTTTTAAGATA
Found at i:17227229 original size:27 final size:28
Alignment explanation
Indices: 17227105--17227230 Score: 136
Period size: 27 Copynumber: 4.7 Consensus size: 28
17227095 TTAGTTTACC
*
17227105 AAATTACCAAAATACCTCT-GATTTGT-
1 AAATTACCAAAATACCCCTAGATTTGTA
* ** * *
17227131 GAATTACTGAAATA-CCCTTGACTTGTA
1 AAATTACCAAAATACCCCTAGATTTGTA
* **
17227158 AAATTACCAAAATACCCTTAG-TTTACA
1 AAATTACCAAAATACCCCTAGATTTGTA
17227185 AAATTACCAAAATACCCCTAG-TTTGTA
1 AAATTACCAAAATACCCCTAGATTTGTA
17227212 AAATTACCAAAATACCCCT
1 AAATTACCAAAATACCCCT
17227231 GTAAGGTAGA
Statistics
Matches: 81, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
25 3 0.04
26 17 0.21
27 57 0.70
28 4 0.05
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.30
Consensus pattern (28 bp):
AAATTACCAAAATACCCCTAGATTTGTA
Found at i:17227245 original size:27 final size:27
Alignment explanation
Indices: 17227186--17227435 Score: 263
Period size: 27 Copynumber: 9.3 Consensus size: 27
17227176 TAGTTTACAA
* ** *
17227186 AATTACCAAAATACCCCTAGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
* *
17227213 AATTACCAAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
17227240 AGTTACTGAAATACCCCTGTAGGGTA-
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
17227266 AAGTTACTGAAATACCCCTATAGGGTAG
1 AA-TTACCGAAATACCCCTGTAGGGTAG
* * *
17227294 AGTTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
17227321 AATTACTAAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
17227348 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
17227375 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
17227402 AATTACC-AAGATAACCCTGCAGGGTAA
1 AATTACCGAA-ATACCCCTGTAGGGTAG
17227429 AATTACC
1 AATTACC
17227436 ATTTTGCCCC
Statistics
Matches: 197, Mismatches: 22, Indels: 8
0.87 0.10 0.04
Matches are distributed among these distances:
26 5 0.03
27 191 0.97
28 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:17227252 original size:54 final size:55
Alignment explanation
Indices: 17227105--17227436 Score: 258
Period size: 54 Copynumber: 6.2 Consensus size: 55
17227095 TTAGTTTACC
* ** * **
17227105 AAATTACCAAAATACCTCTGAT-TTGT-GAATTACTGAAATA-CCCTTG-ACTTGTA
1 AAATTACCAAAATACCCCT-ATAGGGTAGAATTACTGAAATACCCCTAGTA-GGGTA
** * ** **
17227158 AAATTACCAAAATA-CCCT-TAGTTTACAAAATTACCAAAATACCCCTAGT-TTGTA
1 AAATTACCAAAATACCCCTATAGGGT--AGAATTACTGAAATACCCCTAGTAGGGTA
* * *
17227212 AAATTACCAAAATACCCCTGTAAGGTAGAGTTACTGAAATACCCCT-GTAGGGTA
1 AAATTACCAAAATACCCCTATAGGGTAGAATTACTGAAATACCCCTAGTAGGGTA
* ** *
17227266 AAGTTACTGAAATACCCCTATAGGGTAGAGTTACTGAAATACCCCTA-TAGGGTA
1 AAATTACCAAAATACCCCTATAGGGTAGAATTACTGAAATACCCCTAGTAGGGTA
* * * *
17227320 GAATTACTAAAATACCCCTATAGGGTAGAATTACCGAAATA-CCCTTGTAGGGTA
1 AAATTACCAAAATACCCCTATAGGGTAGAATTACTGAAATACCCCTAGTAGGGTA
* * * * *
17227374 GAAA-TACCGAAATACCCCTGTAGGGTAGAATTAC-CAAGATAACCCT-GCAGGGTA
1 -AAATTACCAAAATACCCCTATAGGGTAGAATTACTGAA-ATACCCCTAGTAGGGTA
17227428 AAATTACCA
1 AAATTACCA
17227437 TTTTGCCCCT
Statistics
Matches: 230, Mismatches: 34, Indels: 29
0.78 0.12 0.10
Matches are distributed among these distances:
50 1 0.00
51 2 0.01
52 3 0.01
53 25 0.11
54 181 0.79
55 15 0.07
56 3 0.01
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (55 bp):
AAATTACCAAAATACCCCTATAGGGTAGAATTACTGAAATACCCCTAGTAGGGTA
Found at i:17227562 original size:11 final size:11
Alignment explanation
Indices: 17227546--17227610 Score: 62
Period size: 11 Copynumber: 6.1 Consensus size: 11
17227536 ATATTGTTAT
17227546 ACATGATATGC
1 ACATGATATGC
17227557 ACATGATATG-
1 ACATGATATGC
**
17227567 TTATGATATGC
1 ACATGATATGC
17227578 ACATGATATGC
1 ACATGATATGC
* *
17227589 -TATGATATAC
1 ACATGATATGC
* *
17227599 TCATTATATGC
1 ACATGATATGC
17227610 A
1 A
17227611 TGGGTTGGGT
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
10 16 0.38
11 26 0.62
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.35
Consensus pattern (11 bp):
ACATGATATGC
Found at i:17227609 original size:21 final size:21
Alignment explanation
Indices: 17227548--17227596 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
17227538 ATTGTTATAC
*
17227548 ATGATATGCACATGATATGTT
1 ATGATATGCACATGATATGCT
17227569 ATGATATGCACATGATATGCT
1 ATGATATGCACATGATATGCT
17227590 ATGATAT
1 ATGATAT
17227597 ACTCATTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (21 bp):
ATGATATGCACATGATATGCT
Found at i:17228667 original size:9 final size:9
Alignment explanation
Indices: 17228653--17228686 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
17228643 ACCAAATACA
17228653 TGTTTTTTT
1 TGTTTTTTT
17228662 TGTTTTTTTT
1 TG-TTTTTTT
*
17228672 TGTTTTGTT
1 TGTTTTTTT
17228681 TGTTTT
1 TGTTTT
17228687 AAATGGTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (9 bp):
TGTTTTTTT
Found at i:17230923 original size:27 final size:27
Alignment explanation
Indices: 17230893--17231196 Score: 383
Period size: 27 Copynumber: 11.3 Consensus size: 27
17230883 GGGGCAAAAT
* * *
17230893 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
17230920 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
17230947 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
17230974 GGTAATTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
17231001 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
17231028 AATAATTCTATCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
17231055 AATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
17231082 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** * *
17231109 AATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
17231136 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
17231163 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
17231190 GATAATT
1 GGTAATT
17231197 TTATAAATCG
Statistics
Matches: 247, Mismatches: 30, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 247 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:17231017 original size:81 final size:81
Alignment explanation
Indices: 17230893--17231196 Score: 430
Period size: 81 Copynumber: 3.8 Consensus size: 81
17230883 GGGGCAAAAT
* * * * ***
17230893 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAATAATTCTAC
17230958 CCTACAGGGGTATTTC
66 CCTACAGGGGTATTTC
* *
17230974 GGTAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCAATAATTCTAT
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAATAATTCTAC
*
17231039 CCTACAAGGGTATTTC
66 CCTACAGGGGTATTTC
** *
17231055 AATATTTCTACCCTACAAGGGTATTTC-GATAATTCTACCCTACAGGGGTATTTCAATAATTCTA
1 GGTAATTCTACCCTACAAGGGTATTTCAG-TAATTCTACCCTACAGGGGTATTTCAATAATTCTA
*
17231119 CCCTATAGGGGTATTTC
65 CCCTACAGGGGTATTTC
* * * *
17231136 GGTATTTCTACCCTACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGATAATT
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAATAATT
17231197 TTATAAATCG
Statistics
Matches: 199, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
80 1 0.01
81 197 0.99
82 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.36
Consensus pattern (81 bp):
GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAATAATTCTAC
CCTACAGGGGTATTTC
Found at i:17231210 original size:27 final size:27
Alignment explanation
Indices: 17231178--17231441 Score: 190
Period size: 27 Copynumber: 9.7 Consensus size: 27
17231168 TTCTACCCTA
* * *
17231178 CAAGGGTATTTCGATAATTTTATAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *** * **
17231205 CGAGGGAAAAATGGTAATTCTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * * *
17231232 TAAGGGTACTTTAGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAT
** **
17231259 CAAGGGTATTTCAGTAATTTTACAGGT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* ** **
17231286 CGAGGGTATTTCAGTAATTTCCCAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
17231313 CAGGGGGTATTTTGGTAATTTTACAAA-
1 CA-AGGGTATTTTGGTAATTTTACAAAT
* *
17231340 CTAGAGGTATTTTGGTAATTTTATAAA-
1 CAAG-GGTATTTTGGTAATTTTACAAAT
* *
17231367 CTAGGGGTATTTTGGTAATTTTACAAAC
1 C-AAGGGTATTTTGGTAATTTTACAAAT
* * *
17231395 CAGGGGTATTTTGGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
17231422 CAAGGGTATTTTAGTAATTT
1 CAAGGGTATTTTGGTAATTT
17231442 GGTAAACTAA
Statistics
Matches: 189, Mismatches: 44, Indels: 8
0.78 0.18 0.03
Matches are distributed among these distances:
26 1 0.01
27 167 0.88
28 21 0.11
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:17231351 original size:82 final size:81
Alignment explanation
Indices: 17231235--17231441 Score: 213
Period size: 82 Copynumber: 2.5 Consensus size: 81
17231225 TGTAAATTAA
* * * * **
17231235 GGGTACTTTAGTAATTTTACAAGTCAAG-GGTATTTCAGTAATTTTACAGGTCGA-GGGTATTTC
1 GGGTATTTTGGTAATTTTACAA-ACAAGAGGTATTTTAGTAATTTTACA-AACGAGGGGTATTTC
* *
17231298 AGTAATTTCCCAAATCAGG
64 AGTAATTTCACAAACCA-G
* * * * **
17231317 GGGTATTTTGGTAATTTTACAAACTAGAGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACAAGAGGTATTTTAGTAATTTTACAAACGAGGGGTATTTCAG
*
17231382 TAATTTTACAAACCAG
66 TAATTTCACAAACCAG
*
17231398 GGGTATTTTGGTAATTTTATAAACCAAG-GGTATTTTAGTAATTT
1 GGGTATTTTGGTAATTTTACAAA-CAAGAGGTATTTTAGTAATTT
17231442 GGTAAACTAA
Statistics
Matches: 104, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
81 43 0.41
82 61 0.59
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAACAAGAGGTATTTTAGTAATTTTACAAACGAGGGGTATTTCAG
TAATTTCACAAACCAG
Found at i:17233068 original size:25 final size:25
Alignment explanation
Indices: 17233040--17233109 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
17233030 CTCTTTTAAT
*
17233040 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
17233065 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
17233090 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
17233110 AGCACTTCCT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:17233344 original size:27 final size:27
Alignment explanation
Indices: 17233314--17233528 Score: 261
Period size: 27 Copynumber: 8.0 Consensus size: 27
17233304 GGGGCAAAAT
* * *
17233314 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
17233341 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
17233368 GGTATTTCTACCCTACAAAGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
17233395 AGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
17233422 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
17233449 GGTAATTTTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
17233476 GGTAATTCTACCCTAC-AGGGATATTTC
1 GGTAATTCTACCCTACAAGGG-TATTTC
* * *
17233503 AGTAATTCTACCCTATAGGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
17233529 TAATATTTTA
Statistics
Matches: 164, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 4 0.02
27 157 0.96
28 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:17233450 original size:81 final size:81
Alignment explanation
Indices: 17233315--17233528 Score: 313
Period size: 81 Copynumber: 2.6 Consensus size: 81
17233305 GGGCAAAATG
* * * * * *
17233315 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGT-ATTTCTAC
1 GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGGTAATTT-TAC
17233379 CCTACAAAGGTATTTCA
65 CCTACAAAGGTATTTCA
*
17233396 GTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTCGGTAATTTTACC
1 GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGGTAATTTTACC
* * *
17233461 CTATAAGGGTATTTCG
66 CTACAAAGGTATTTCA
*
17233477 GTAATTCTACCCTACAGGGATATTTCAGTAATTCTACCCTATAGGGGTATTT
1 GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTT
17233529 TAATATTTTA
Statistics
Matches: 120, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
81 116 0.97
82 4 0.03
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (81 bp):
GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGGTAATTTTACC
CTACAAAGGTATTTCA
Found at i:17233608 original size:54 final size:54
Alignment explanation
Indices: 17233521--17233740 Score: 228
Period size: 54 Copynumber: 4.1 Consensus size: 54
17233511 TACCCTATAG
* * * * * * *
17233521 GGGTATTTTAAT-ATTTTACAAATCAAGAGTATTTCGATAATTTCACAAATCGA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAATCGA
* * * *
17233574 GAGTATTTTCGTAATTTTACAAGCCAGGGGTATTTTGGTAATTTTACAAA-CCA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAATCGA
* *
17233627 GGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACTAATCGA
1 -GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAATCGA
* ** * * ** *
17233682 GGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTCAGTAATTTTATAAATCGA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAATCGA
17233736 GGGTA
1 GGGTA
17233741 AAACGGTAAT
Statistics
Matches: 139, Mismatches: 25, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
53 11 0.08
54 126 0.91
55 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAATCGA
Found at i:17233738 original size:27 final size:27
Alignment explanation
Indices: 17233533--17233929 Score: 173
Period size: 27 Copynumber: 14.7 Consensus size: 27
17233523 GTATTTTAAT
* * * *
17233533 ATTTTACAAATCAAGAGTATTTCGATA
1 ATTTTATAAATCGAGGGTATTTCGGTA
* * *
17233560 ATTTCACAAATCGAGAGTATTTTC-GTA
1 ATTTTATAAATCGAGGGTA-TTTCGGTA
* * * *
17233587 ATTTTA-CAAGCCAGGGGTATTTTGGTA
1 ATTTTATAAATCGA-GGGTATTTCGGTA
* * **
17233614 ATTTTACAAA-CCAGGGGTATTTTAGTA
1 ATTTTATAAATCGA-GGGTATTTCGGTA
* * *
17233641 ATTTTACAAA-CTAGGGGTATTTTGGTA
1 ATTTTATAAATCGA-GGGTATTTCGGTA
*
17233668 ATTTTACT-AATCGAGGGTATTTTGGTA
1 ATTTTA-TAAATCGAGGGTATTTCGGTA
* * *
17233695 ATTTTGTAAA-CTAAGGGTATTTCAGTA
1 ATTTTATAAATC-GAGGGTATTTCGGTA
***
17233722 ATTTTATAAATCGAGGGTAAAACGGTA
1 ATTTTATAAATCGAGGGTATTTCGGTA
* *** *
17233749 ATTCTATAAATCGAGGGTAAAACAGTA
1 ATTTTATAAATCGAGGGTATTTCGGTA
* * **
17233776 ATTCTATAAATCAAGGGTAAAAT-GGTA
1 ATTTTATAAATCGAGGGT-ATTTCGGTA
* * ***
17233803 ATTCTATAAATCAAGGGTAAAACGGTA
1 ATTTTATAAATCGAGGGTATTTCGGTA
* * ***
17233830 ATTCTGTAAATCGAGGGTAAAACGGTA
1 ATTTTATAAATCGAGGGTATTTCGGTA
* * **
17233857 ATTCTGTAAATCGAGGGTAAAAT-GGTA
1 ATTTTATAAATCGAGGGT-ATTTCGGTA
* * **
17233884 ATTCTGTAAATCGAGGGTAAAAT-GGTA
1 ATTTTATAAATCGAGGGT-ATTTCGGTA
*
17233911 ATTCTATAAATCGAGGGTA
1 ATTTTATAAATCGAGGGTA
17233930 AAACGGTAAT
Statistics
Matches: 323, Mismatches: 35, Indels: 25
0.84 0.09 0.07
Matches are distributed among these distances:
26 13 0.04
27 295 0.91
28 15 0.05
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.34
Consensus pattern (27 bp):
ATTTTATAAATCGAGGGTATTTCGGTA
Found at i:17233740 original size:81 final size:81
Alignment explanation
Indices: 17233519--17233740 Score: 245
Period size: 81 Copynumber: 2.8 Consensus size: 81
17233509 TCTACCCTAT
** * * * *
17233519 AGGGGTATTTTAAT-ATTTTACAAATCAAGAGTATTTC-GATAATTTCACAAATCGAGAGTATTT
1 AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAG-TAATTTTACAAATCGAGGGTATTT
17233582 TCGTAATTTTACAAGCC
65 TCGTAATTTTACAAGCC
* * *
17233599 AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAA-CTAGGGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAATCGA-GGGTATTT
* * *
17233663 TGGTAATTTTACTAATCG
65 TCGTAATTTTAC-AAGCC
** * *
17233681 A-GGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTCAGTAATTTTATAAATCGAGGGTA
1 AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAATCGAGGGTA
17233741 AAACGGTAAT
Statistics
Matches: 118, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
80 14 0.12
81 97 0.82
82 7 0.06
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTT
CGTAATTTTACAAGCC
Found at i:17233749 original size:81 final size:81
Alignment explanation
Indices: 17233584--17233767 Score: 194
Period size: 81 Copynumber: 2.3 Consensus size: 81
17233574 GAGTATTTTC
* * * *
17233584 GTAATTTTAC-AAGCCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTAC
1 GTAATTTTACTAATCGA-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTAC
* ****
17233648 AAACTAGGGGTATTTTG
65 AAACGAGGGGTAAAACG
** * *
17233665 GTAATTTTACTAATCGAGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTCAGTAATTTTATA
1 GTAATTTTACTAATCGAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACA
17233730 AATCGA-GGGTAAAACG
66 AA-CGAGGGGTAAAACG
*
17233746 GTAATTCTA-TAAATCGAGGGTA
1 GTAATTTTACT-AATCGAGGGTA
17233768 AAACAGTAAT
Statistics
Matches: 86, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
80 1 0.01
81 79 0.92
82 6 0.07
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.38
Consensus pattern (81 bp):
GTAATTTTACTAATCGAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACA
AACGAGGGGTAAAACG
Found at i:17233930 original size:27 final size:27
Alignment explanation
Indices: 17233719--17233942 Score: 358
Period size: 27 Copynumber: 8.3 Consensus size: 27
17233709 GGGTATTTCA
*
17233719 GTAATTTTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
17233746 GTAATTCTATAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
17233773 GTAATTCTATAAATCAAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
17233800 GTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
17233827 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
17233854 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
17233881 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
17233908 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
17233935 GTAATTCT
1 GTAATTCT
17233943 GGAAACGAAC
Statistics
Matches: 186, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 186 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:17239388 original size:21 final size:21
Alignment explanation
Indices: 17239363--17239413 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
17239353 ATTTTGATAT
*
17239363 ACATGATATGACATGACATGC
1 ACATGATATGACATGACATGA
** *
17239384 ACATGATATGTTATGAGATGA
1 ACATGATATGACATGACATGA
17239405 ACATGATAT
1 ACATGATAT
17239414 ACTTATTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (21 bp):
ACATGATATGACATGACATGA
Found at i:17239532 original size:24 final size:25
Alignment explanation
Indices: 17239459--17239543 Score: 118
Period size: 25 Copynumber: 3.4 Consensus size: 25
17239449 GGAGGAAGTG
* * *
17239459 CAAAATGGGCTTTGCCCTAGTTTAC
1 CAAAAAGGGCTTTGCCCCAGTTTAT
*
17239484 CGAAAAGGGCTTTGCCCCAGTTTAT
1 CAAAAAGGGCTTTGCCCCAGTTTAT
17239509 CAAAAAGGGCTTTGCCCCAG-TTAT
1 CAAAAAGGGCTTTGCCCCAGTTTAT
*
17239533 TAAAAAGGGCT
1 CAAAAAGGGCT
17239544 AGGCCTCCAG
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
24 14 0.26
25 40 0.74
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (25 bp):
CAAAAAGGGCTTTGCCCCAGTTTAT
Found at i:17239553 original size:25 final size:24
Alignment explanation
Indices: 17239459--17239557 Score: 108
Period size: 25 Copynumber: 4.0 Consensus size: 24
17239449 GGAGGAAGTG
* * *
17239459 CAAAATGGGCTTTGCCCTAGTTTAC
1 CAAAAAGGGCTTTGCCCCAG-TTAT
*
17239484 CGAAAAGGGCTTTGCCCCAGTTTAT
1 CAAAAAGGGCTTTGCCCCAG-TTAT
17239509 CAAAAAGGGCTTTGCCCCAGTTAT
1 CAAAAAGGGCTTTGCCCCAGTTAT
* **
17239533 TAAAAAGGGCTAGGCCTCCAGTTAT
1 CAAAAAGGGCTTTGCC-CCAGTTAT
17239558 GATAAAGCAG
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
24 17 0.26
25 48 0.74
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27
Consensus pattern (24 bp):
CAAAAAGGGCTTTGCCCCAGTTAT
Found at i:17239816 original size:30 final size:31
Alignment explanation
Indices: 17239749--17239831 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
17239739 CACTTACAAT
*
17239749 AAAGGCTTCGGCCCAGTGATATGAATTTTGA
1 AAAGGCTTCGGCCCAGTGATATGAATTATGA
*
17239780 AAAGGCTTCGGCCCAGTGTTATGAATTATG-
1 AAAGGCTTCGGCCCAGTGATATGAATTATGA
*
17239810 AAAGGCTTCAGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
17239832 TTGAGACTGA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
29 4 0.08
30 16 0.33
31 28 0.58
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATTATGA
Found at i:17251202 original size:27 final size:25
Alignment explanation
Indices: 17251171--17251233 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 25
17251161 GCATCTGGTA
* *
17251171 CTGATTCTGTACTGGGCTTAGGCCCAC
1 CTGATTCTGTAATGGGC-TAAG-CCAC
17251198 CTGATTCTGTTAATGGGCTAAGCCAC
1 CTGATTCTG-TAATGGGCTAAGCCAC
*
17251224 CTGATACTGT
1 CTGATTCTGT
17251234 TTCTGTGATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 1 0.03
26 12 0.38
27 12 0.38
28 7 0.22
ACGTcount: A:0.19, C:0.25, G:0.24, T:0.32
Consensus pattern (25 bp):
CTGATTCTGTAATGGGCTAAGCCAC
Found at i:17255764 original size:50 final size:50
Alignment explanation
Indices: 17255689--17255788 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
17255679 TGGTATAGAG
*
17255689 TTAGTACCGAGAACTACTCTGATTTTGAGAGCTCCATATAGAATGTCTCT
1 TTAGTACCGAGAACTACTCTGATTTTGAAAGCTCCATATAGAATGTCTCT
*
17255739 TTAGTACCGAGAACTACTCTGATTTTGAAAGCTCCGTATAGAATGTCTCT
1 TTAGTACCGAGAACTACTCTGATTTTGAAAGCTCCATATAGAATGTCTCT
17255789 GACCGAGTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (50 bp):
TTAGTACCGAGAACTACTCTGATTTTGAAAGCTCCATATAGAATGTCTCT
Done.