Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 62 of 250
Found at i:19104968 original size:56 final size:56
Alignment explanation
Indices: 19104908--19105042 Score: 209
Period size: 56 Copynumber: 2.4 Consensus size: 56
19104898 TCCCAGACAG
* *
19104908 GGTCTTACTCG-AGCGCATATATCGGAGTCACATATTGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCAG-ACATATATCGGAGTCACATATCGATGCCAACGTATTAAACGT
*
19104964 GGTCTTACTCGCAGACATATATCGGAGTCAGATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCAGACATATATCGGAGTCACATATCGATGCCAACGTATTAAACGT
* *
19105020 GGTCTTACTCGCACATATATATC
1 GGTCTTACTCGCAGACATATATC
19105043 AATGCCATGG
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
56 71 0.97
57 2 0.03
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (56 bp):
GGTCTTACTCGCAGACATATATCGGAGTCACATATCGATGCCAACGTATTAAACGT
Found at i:19112964 original size:23 final size:22
Alignment explanation
Indices: 19112927--19112976 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 22
19112917 GCTGAATTCA
*
19112927 TGAACCATCTTTAATGTTTTAGTG
1 TGAACCATCTTTAAT-TGTT-GTG
*
19112951 TGAACC-TTTTTAATTGTTGTG
1 TGAACCATCTTTAATTGTTGTG
19112972 TGAAC
1 TGAAC
19112977 ACATTAGTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 8 0.33
22 3 0.12
23 7 0.29
24 6 0.25
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.46
Consensus pattern (22 bp):
TGAACCATCTTTAATTGTTGTG
Found at i:19113783 original size:22 final size:22
Alignment explanation
Indices: 19113758--19113813 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 22
19113748 TTTGTAGTAG
19113758 AAAAAAAAAGAAATTCGAAAGT
1 AAAAAAAAAGAAATTCGAAAGT
* **
19113780 AAAAAAAACGGATGTTCGAAAGT
1 AAAAAAAA-AGAAATTCGAAAGT
19113803 AAAAAAAAAGA
1 AAAAAAAAAGA
19113814 GAAAGAAGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 10 0.34
23 19 0.66
ACGTcount: A:0.66, C:0.05, G:0.16, T:0.12
Consensus pattern (22 bp):
AAAAAAAAAGAAATTCGAAAGT
Found at i:19114712 original size:15 final size:15
Alignment explanation
Indices: 19114693--19114727 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
19114683 TAATGAAATT
19114693 GAAATAAGAGAAAAA
1 GAAATAAGAGAAAAA
* *
19114708 TAAATGAGAGAAAAA
1 GAAATAAGAGAAAAA
19114723 GAAAT
1 GAAAT
19114728 CAAAAAAGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.20, T:0.11
Consensus pattern (15 bp):
GAAATAAGAGAAAAA
Found at i:19115587 original size:12 final size:13
Alignment explanation
Indices: 19115570--19115598 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
19115560 ACCCTTGTGC
19115570 GAAATTT-CTTGT
1 GAAATTTCCTTGT
19115582 GAAATTTCCTTGT
1 GAAATTTCCTTGT
19115595 GAAA
1 GAAA
19115599 AGAAAATTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.41
Consensus pattern (13 bp):
GAAATTTCCTTGT
Found at i:19115639 original size:24 final size:24
Alignment explanation
Indices: 19115607--19115655 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
19115597 AAAGAAAATT
19115607 CTTGCTACATTATGGAATGAGTGA
1 CTTGCTACATTATGGAATGAGTGA
19115631 CTTGCTACATTATGGAATGAGTGA
1 CTTGCTACATTATGGAATGAGTGA
19115655 C
1 C
19115656 CAAAACTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (24 bp):
CTTGCTACATTATGGAATGAGTGA
Found at i:19116389 original size:15 final size:16
Alignment explanation
Indices: 19116369--19116398 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
19116359 TTAAGGACTT
19116369 TTTTATTT-AATTAAG
1 TTTTATTTAAATTAAG
19116384 TTTTATTTAAATTAA
1 TTTTATTTAAATTAA
19116399 TAACTTTACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (16 bp):
TTTTATTTAAATTAAG
Found at i:19116558 original size:23 final size:23
Alignment explanation
Indices: 19116528--19116573 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
19116518 CCCATGTTAG
19116528 TTTAAGTCTACATTATTAAATTA
1 TTTAAGTCTACATTATTAAATTA
*
19116551 TTTAAGTCTGCATTATTAAATTA
1 TTTAAGTCTACATTATTAAATTA
19116574 AGTCTGTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.48
Consensus pattern (23 bp):
TTTAAGTCTACATTATTAAATTA
Found at i:19116780 original size:10 final size:11
Alignment explanation
Indices: 19116755--19116787 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
19116745 ATGTGTTTTT
*
19116755 TGTTTAATAAG
1 TGTTTAATATG
19116766 TGTTTAA-ATG
1 TGTTTAATATG
19116776 TGTTTAATATG
1 TGTTTAATATG
19116787 T
1 T
19116788 TTGTTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (11 bp):
TGTTTAATATG
Found at i:19119778 original size:12 final size:12
Alignment explanation
Indices: 19119761--19119806 Score: 65
Period size: 12 Copynumber: 3.7 Consensus size: 12
19119751 TATACAAGTC
19119761 AAAAAAAATTCG
1 AAAAAAAATTCG
*
19119773 AAAAAAAATTCA
1 AAAAAAAATTCG
19119785 AAAAAAAATTTCG
1 AAAAAAAA-TTCG
19119798 AAAAGAAAA
1 AAAA-AAAA
19119807 AAAAATCTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 19 0.63
13 7 0.23
14 4 0.13
ACGTcount: A:0.72, C:0.07, G:0.07, T:0.15
Consensus pattern (12 bp):
AAAAAAAATTCG
Found at i:19119820 original size:19 final size:19
Alignment explanation
Indices: 19119784--19119823 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
19119774 AAAAAAATTC
*
19119784 AAAAAAAAATTTCGAAAAG
1 AAAAAAAAATCTCGAAAAG
19119803 AAAAAAAAATCT-GAAAA-
1 AAAAAAAAATCTCGAAAAG
19119820 AAAA
1 AAAA
19119824 GTGTTTAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 5 0.25
19 11 0.55
ACGTcount: A:0.75, C:0.05, G:0.07, T:0.12
Consensus pattern (19 bp):
AAAAAAAAATCTCGAAAAG
Found at i:19120745 original size:9 final size:10
Alignment explanation
Indices: 19120726--19120777 Score: 54
Period size: 9 Copynumber: 5.1 Consensus size: 10
19120716 TACATTCTTG
19120726 TAAAGAGAAAA
1 TAAA-AGAAAA
19120737 T-AAAGAAAA
1 TAAAAGAAAA
19120746 TAAAAGAAAAA
1 TAAAAG-AAAA
*
19120757 GTAAAAGAAGA
1 -TAAAAGAAAA
19120768 -AAAAGAAAA
1 TAAAAGAAAA
19120777 T
1 T
19120778 GAAATAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
9 15 0.43
10 6 0.17
11 8 0.23
12 6 0.17
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (10 bp):
TAAAAGAAAA
Found at i:19120751 original size:21 final size:20
Alignment explanation
Indices: 19120727--19120796 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
19120717 ACATTCTTGT
*
19120727 AAAGAGAAAATAAAGAAAATA
1 AAAGAGAAAATAAA-AAAAGA
*
19120748 AAAGA-AAAAGTAAAAGAAGA
1 AAAGAGAAAA-TAAAAAAAGA
19120768 AAA-AGAAAATGAAATAAAAAGA
1 AAAGAGAAAAT--AA-AAAAAGA
19120790 AAAGAGA
1 AAAGAGA
19120797 GGCAAGAGGC
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
19 2 0.05
20 15 0.38
21 11 0.28
22 9 0.22
23 3 0.08
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (20 bp):
AAAGAGAAAATAAAAAAAGA
Found at i:19120774 original size:31 final size:31
Alignment explanation
Indices: 19120725--19120794 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
19120715 GTACATTCTT
19120725 GTAAAGAGAAAATAAAGAAAATAAAAGAAAAA
1 GTAAA-AGAAAATAAAGAAAATAAAAGAAAAA
* *
19120757 GTAAAAGAAGAA-AAAGAAAATGAAATAAAAA
1 GTAAAAGAA-AATAAAGAAAATAAAAGAAAAA
19120788 G-AAAAGA
1 GTAAAAGA
19120795 GAGGCAAGAG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 6 0.17
31 22 0.63
32 7 0.20
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.09
Consensus pattern (31 bp):
GTAAAAGAAAATAAAGAAAATAAAAGAAAAA
Found at i:19120786 original size:16 final size:16
Alignment explanation
Indices: 19120738--19120792 Score: 69
Period size: 16 Copynumber: 3.5 Consensus size: 16
19120728 AAGAGAAAAT
*
19120738 AAAGAAAATAAAAGAA
1 AAAGAAAATGAAAGAA
19120754 AAAGTAAAA-G-AAGAA
1 AAAG-AAAATGAAAGAA
*
19120769 AAAGAAAATGAAATAA
1 AAAGAAAATGAAAGAA
19120785 AAAGAAAA
1 AAAGAAAA
19120793 GAGAGGCAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
14 4 0.12
15 10 0.29
16 16 0.47
17 4 0.12
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (16 bp):
AAAGAAAATGAAAGAA
Found at i:19120897 original size:30 final size:31
Alignment explanation
Indices: 19120863--19120944 Score: 96
Period size: 30 Copynumber: 2.7 Consensus size: 31
19120853 TTTGAAAAGA
*
19120863 AAAAAGAAAAAGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAAAGAAAAAGAAATATGAGAGTG
* * *
19120893 AAAAAGAGAACG-AAAAGAAATCTGAGAGTG
1 AAAAAGAAAAAGAAAAAGAAATATGAGAGTG
* *
19120923 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAAAGAAAAAGAAAT
19120945 TGAAACAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 8 0.19
30 26 0.60
31 9 0.21
ACGTcount: A:0.66, C:0.02, G:0.22, T:0.10
Consensus pattern (31 bp):
AAAAAGAAAAAGAAAAAGAAATATGAGAGTG
Found at i:19123059 original size:30 final size:30
Alignment explanation
Indices: 19123025--19123111 Score: 95
Period size: 30 Copynumber: 2.9 Consensus size: 30
19123015 AGCTCACTCC
19123025 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
19123055 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* *
19123085 CAGCTCAACTTTAGCTCACGAGCTAAA
1 TAGCTCAACTTCAGCTCACGAGCTAAA
19123112 GGTACATTCC
Statistics
Matches: 44, Mismatches: 12, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 43 0.98
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:19141744 original size:63 final size:64
Alignment explanation
Indices: 19141663--19141843 Score: 184
Period size: 67 Copynumber: 2.8 Consensus size: 64
19141653 CACATAATTT
* * *
19141663 TAGCTCTCTTGTACACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAC-TTTATCTTG
1 TAGCTCTCTTGTATACATGGTGTACACTTAGTACCACCCATGTGACCTAGCCACATTTATCTCG
* * * * ** *** *
19141726 TAGCTCTCTTGTTTACATGGTGTCCTTCACTTGGAACCACATATACAACCTAGCTACATTTATCT
1 TAGCTCTCTTGTATACATGGTG---TACACTTAGTACCACCCATGTGACCTAGCCACATTTATCT
19141791 CG
63 CG
* * *
19141793 TAGCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGTGACCTAGC
1 TAGCTCTCTTGTATACATGGTGTACACTTAGTACCACCCATGTGACCTAGC
19141844 TACCTCATAA
Statistics
Matches: 90, Mismatches: 24, Indels: 7
0.74 0.20 0.06
Matches are distributed among these distances:
63 20 0.22
64 19 0.21
66 22 0.24
67 29 0.32
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.33
Consensus pattern (64 bp):
TAGCTCTCTTGTATACATGGTGTACACTTAGTACCACCCATGTGACCTAGCCACATTTATCTCG
Found at i:19150471 original size:46 final size:49
Alignment explanation
Indices: 19150418--19150733 Score: 277
Period size: 46 Copynumber: 6.7 Consensus size: 49
19150408 CTCGTGGGCT
* *
19150418 AGTGTAAGA-CATGTCTAGGACAT-GCATCGACCAC-ATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCACGATGATGAGAGCC
* ** * * *
19150464 AGTGTAAGACCATGTCTGGGACATGGCATCG-GCATTAAGATGAGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCACGATGATGAGAGCC
* * *
19150512 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGA-GACGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCACGATGATG-AGAGCC
* * * * * *
19150558 AATGTAAGA-CATGTCTGGGACAT-GCATCGGCTATGA-GAT--GTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCACGATGATGAGAGCC
**
19150602 AGTGTAAGACCATGTCTGGGACATGGCATCGA-CACGGAT-ATGCAAGAGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCAC-GATGATG--AGAGCC
* *
19150652 AGTGTAAGACCATGTCTGGGACATGGCATC-AGCCTCGATGATGATAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGA-CCACGATGATGAGAGCC
*
19150701 AGTGTAAGACCATGTCTAGGACATGGCATCGAC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC
19150734 AACTTACCCC
Statistics
Matches: 220, Mismatches: 32, Indels: 33
0.77 0.11 0.12
Matches are distributed among these distances:
44 10 0.05
45 15 0.07
46 64 0.29
47 32 0.15
48 23 0.10
49 34 0.15
50 37 0.17
51 5 0.02
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACCACGATGATGAGAGCC
Found at i:19154537 original size:43 final size:43
Alignment explanation
Indices: 19154456--19154707 Score: 264
Period size: 43 Copynumber: 6.0 Consensus size: 43
19154446 TGGATCACAT
* * * * *
19154456 CACG-AATCAAATA-CGATGCTAATATCCAAGACATGGTCTTA
1 CACGTAATCACATATCGATGCCAATGTCCCAGACGTGGTCTTA
* * *
19154497 CACGTAATCACATATCAATGCCAACGTCCCAGATGTGGTCTTA
1 CACGTAATCACATATCGATGCCAATGTCCCAGACGTGGTCTTA
* * * *
19154540 CATG-AATCAAATA-CGATGCCGATGTCCCAGACATGGTCTTA
1 CACGTAATCACATATCGATGCCAATGTCCCAGACGTGGTCTTA
* *
19154581 CACTTAATCACATATCGATGCCAATGTCCCAAACGTGGTCTTA
1 CACGTAATCACATATCGATGCCAATGTCCCAGACGTGGTCTTA
* * * * * *
19154624 CATG-AATCAAATA-CGATACCGATGTCCTAGACATGGTCTTA
1 CACGTAATCACATATCGATGCCAATGTCCCAGACGTGGTCTTA
**
19154665 CACGTAATCACATATCGATGCCAACATCCCAGACGTGGTCTTA
1 CACGTAATCACATATCGATGCCAATGTCCCAGACGTGGTCTTA
19154708 TCCAACATCC
Statistics
Matches: 168, Mismatches: 37, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
41 55 0.33
42 40 0.24
43 73 0.43
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (43 bp):
CACGTAATCACATATCGATGCCAATGTCCCAGACGTGGTCTTA
Found at i:19154602 original size:84 final size:84
Alignment explanation
Indices: 19154459--19154707 Score: 390
Period size: 84 Copynumber: 3.0 Consensus size: 84
19154449 ATCACATCAC
** * *
19154459 GAATCAAATACGATGCTAATATCCAAGACATGGTCTTACACGTAATCACATATCAATGCCAACGT
1 GAATCAAATACGATGCCGATGTCCAAGACATGGTCTTACACGTAATCACATATCGATGCCAACGT
*
19154524 CCCAGATGTGGTCTTACAT
66 CCCAGACGTGGTCTTACAT
* * *
19154543 GAATCAAATACGATGCCGATGTCCCAGACATGGTCTTACACTTAATCACATATCGATGCCAATGT
1 GAATCAAATACGATGCCGATGTCCAAGACATGGTCTTACACGTAATCACATATCGATGCCAACGT
*
19154608 CCCAAACGTGGTCTTACAT
66 CCCAGACGTGGTCTTACAT
* * *
19154627 GAATCAAATACGATACCGATGTCCTAGACATGGTCTTACACGTAATCACATATCGATGCCAACAT
1 GAATCAAATACGATGCCGATGTCCAAGACATGGTCTTACACGTAATCACATATCGATGCCAACGT
19154692 CCCAGACGTGGTCTTA
66 CCCAGACGTGGTCTTA
19154708 TCCAACATCC
Statistics
Matches: 150, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
84 150 1.00
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (84 bp):
GAATCAAATACGATGCCGATGTCCAAGACATGGTCTTACACGTAATCACATATCGATGCCAACGT
CCCAGACGTGGTCTTACAT
Found at i:19154717 original size:24 final size:24
Alignment explanation
Indices: 19154685--19154731 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
19154675 CATATCGATG
19154685 CCAACATCCCAGACGTGGTCTTAT
1 CCAACATCCCAGACGTGGTCTTAT
*
19154709 CCAACATCCCAGACGTTGTCTTA
1 CCAACATCCCAGACGTGGTCTTA
19154732 CACAAATCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.34, G:0.15, T:0.26
Consensus pattern (24 bp):
CCAACATCCCAGACGTGGTCTTAT
Found at i:19155622 original size:24 final size:24
Alignment explanation
Indices: 19155587--19155637 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
19155577 CCTTAAAAGC
19155587 TTTATTTATTTTCTTTCTTTGATG
1 TTTATTTATTTTCTTTCTTTGATG
*
19155611 TTTATTTCTTTTCTTTCTTTGATG
1 TTTATTTATTTTCTTTCTTTGATG
19155635 TTT
1 TTT
19155638 CGGTCATGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.10, C:0.10, G:0.08, T:0.73
Consensus pattern (24 bp):
TTTATTTATTTTCTTTCTTTGATG
Found at i:19158536 original size:26 final size:26
Alignment explanation
Indices: 19158505--19158564 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
19158495 TATGTATATT
19158505 TTTACATTACAAAAAAATATATAATA
1 TTTACATTACAAAAAAATATATAATA
*
19158531 TTTACATTACAAAAAAATATGTAATA
1 TTTACATTACAAAAAAATATATAATA
19158557 TTTACATT
1 TTTACATT
19158565 TAACTACAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (26 bp):
TTTACATTACAAAAAAATATATAATA
Found at i:19160773 original size:48 final size:48
Alignment explanation
Indices: 19160708--19160984 Score: 244
Period size: 48 Copynumber: 5.8 Consensus size: 48
19160698 CATAATAGGG
* * * **
19160708 TGCCGATGCCATATCCCAGATATGGTCTTACATGGGGCCACATATCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGA
*
19160756 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACAT--A
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGA
** * * * * *
19160802 T--CAAACCCGATAG-CCCAGCCCTGGTCTTACACGATG-TACTCATATCGA
1 TGCCAATGCC-AT-GTCCCAGACATGGTCTTACATG-GGAT-CACATATCGA
* * *
19160850 TGCCAATGCCATGTCCCAAACATGGTCTTATATGGAATCACATAAT-GA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACAT-ATCGA
* *
19160898 TGCCAATGCCATGTCCCAGACATGGTTTTACATGGGATCATATATCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGA
** * * * *
19160946 TGCTGATGCCATATCCCAGATATGGTCTTATACGGGATC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
19160985 TCATCGACCC
Statistics
Matches: 181, Mismatches: 36, Indels: 24
0.75 0.15 0.10
Matches are distributed among these distances:
44 5 0.03
45 20 0.11
46 9 0.05
47 2 0.01
48 120 0.66
49 20 0.11
50 5 0.03
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (48 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGA
Found at i:19161716 original size:141 final size:141
Alignment explanation
Indices: 19161530--19161811 Score: 555
Period size: 141 Copynumber: 2.0 Consensus size: 141
19161520 CAAAAAAATC
*
19161530 ACTTAGAAAAATATGTTCATTTAACACCAAACTTCCATATTCCTCCATTAATCATCAAAATACAT
1 ACTTAGAAAAAGATGTTCATTTAACACCAAACTTCCATATTCCTCCATTAATCATCAAAATACAT
19161595 GCATGACACACATGGGTAATTTTTTTAAACATAAACCCTAGTTCAAATAAAGGGTAGAAATAGCT
66 GCATGACACACATGGGTAATTTTTTTAAACATAAACCCTAGTTCAAATAAAGGGTAGAAATAGCT
19161660 AAATCATGCTT
131 AAATCATGCTT
19161671 ACTTAGAAAAAGATGTTCATTTAACACCAAACTTCCATATTCCTCCATTAATCATCAAAATACAT
1 ACTTAGAAAAAGATGTTCATTTAACACCAAACTTCCATATTCCTCCATTAATCATCAAAATACAT
19161736 GCATGACACACATGGGTAATTTTTTTAAACATAAACCCTAGTTCAAATAAAGGGTAGAAATAGCT
66 GCATGACACACATGGGTAATTTTTTTAAACATAAACCCTAGTTCAAATAAAGGGTAGAAATAGCT
19161801 AAATCATGCTT
131 AAATCATGCTT
19161812 CTAGGATCTT
Statistics
Matches: 140, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
141 140 1.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.30
Consensus pattern (141 bp):
ACTTAGAAAAAGATGTTCATTTAACACCAAACTTCCATATTCCTCCATTAATCATCAAAATACAT
GCATGACACACATGGGTAATTTTTTTAAACATAAACCCTAGTTCAAATAAAGGGTAGAAATAGCT
AAATCATGCTT
Found at i:19168918 original size:27 final size:27
Alignment explanation
Indices: 19168857--19168920 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
19168847 CCTTAATCAA
*
19168857 TAAAATGACTGCTTTGCCCTTATGAGG
1 TAAAATGACTGCTTTGCCCTTATGAGC
* *
19168884 TAACATGACTGCTTTGCCCTTATGTGC
1 TAAAATGACTGCTTTGCCCTTATGAGC
19168911 TAAAATGACT
1 TAAAATGACT
19168921 ATTTTACCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (27 bp):
TAAAATGACTGCTTTGCCCTTATGAGC
Found at i:19169446 original size:27 final size:27
Alignment explanation
Indices: 19169416--19169471 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
19169406 TATATGGGAT
19169416 TACACACTGAGTTTTCGTAAACTCACC
1 TACACACTGAGTTTTCGTAAACTCACC
19169443 TACACACTGAGTTTTCGTAAACTCACC
1 TACACACTGAGTTTTCGTAAACTCACC
19169470 TA
1 TA
19169472 TCTGTTTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.30, C:0.29, G:0.11, T:0.30
Consensus pattern (27 bp):
TACACACTGAGTTTTCGTAAACTCACC
Found at i:19172438 original size:33 final size:33
Alignment explanation
Indices: 19172394--19172465 Score: 108
Period size: 33 Copynumber: 2.2 Consensus size: 33
19172384 AGTAAACAAC
*
19172394 ACAGTATCAGTACAGTCTGGGCCAAAGCCCTAT
1 ACAGTAACAGTACAGTCTGGGCCAAAGCCCTAT
* **
19172427 TCAGTAACAGTACAGTCTGGGCCTTAGCCCTAT
1 ACAGTAACAGTACAGTCTGGGCCAAAGCCCTAT
19172460 ACAGTA
1 ACAGTA
19172466 GCATTGTGGG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (33 bp):
ACAGTAACAGTACAGTCTGGGCCAAAGCCCTAT
Found at i:19175887 original size:27 final size:27
Alignment explanation
Indices: 19175857--19175911 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
19175847 CAGCTTGAAG
19175857 TCGACCCCAAAACACCAAGACGAGTCC
1 TCGACCCCAAAACACCAAGACGAGTCC
19175884 TCGACCCCAAAACACCAAGACGAGTCC
1 TCGACCCCAAAACACCAAGACGAGTCC
19175911 T
1 T
19175912 AAAAAATGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.40, G:0.15, T:0.09
Consensus pattern (27 bp):
TCGACCCCAAAACACCAAGACGAGTCC
Found at i:19176647 original size:21 final size:20
Alignment explanation
Indices: 19176610--19176678 Score: 63
Period size: 21 Copynumber: 3.5 Consensus size: 20
19176600 AAAAGAAATG
**
19176610 AAAGAAAAAT-AGTGTGAAA
1 AAAGAAAAATGAAAGTGAAA
19176629 GAAAGCAAAAA-GAAAGTGAGAA
1 -AAAG-AAAAATGAAAGTGA-AA
*
19176651 AAAGAAAAATGAAATTG-AA
1 AAAGAAAAATGAAAGTGAAA
19176670 AAAGAAAAA
1 AAAGAAAAA
19176679 AAAATTGATC
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
19 11 0.26
20 9 0.21
21 20 0.48
22 2 0.05
ACGTcount: A:0.68, C:0.01, G:0.20, T:0.10
Consensus pattern (20 bp):
AAAGAAAAATGAAAGTGAAA
Found at i:19176677 original size:18 final size:17
Alignment explanation
Indices: 19176648--19176710 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 17
19176638 AAGAAAGTGA
19176648 GAAAAAGAAAAATGAAATT
1 GAAAAAG-AAAA-GAAATT
*
19176667 GAAAAAGAAAAAAAAATT
1 GAAAAAG-AAAAGAAATT
**
19176685 GATCAAGAAAAGAAGATT
1 GAAAAAGAAAAGAA-ATT
19176703 GAAAAAGA
1 GAAAAAGA
19176711 GAGTGAGTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
17 6 0.16
18 19 0.51
19 12 0.32
ACGTcount: A:0.68, C:0.02, G:0.17, T:0.13
Consensus pattern (17 bp):
GAAAAAGAAAAGAAATT
Found at i:19194519 original size:27 final size:27
Alignment explanation
Indices: 19194486--19194968 Score: 233
Period size: 27 Copynumber: 17.8 Consensus size: 27
19194476 CCTCAAATTG
*
19194486 TAAAATTACCAAAGTACCCTTGATTTA
1 TAAAATTACCAAAATACCCTTGATTTA
* *****
19194513 TAGAATTACTGTTTTACCCTTGATTTA
1 TAAAATTACCAAAATACCCTTGATTTA
* * *** *
19194540 CAGAATTACCATTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTTGATTTA
* * ***
19194567 TAGAATTACTATTTTACCCTTGATTTA
1 TAAAATTACCAAAATACCCTTGATTTA
* ***** *
19194594 TAGAATTACTGTTTTACCCTTAATTTA
1 TAAAATTACCAAAATACCCTTGATTTA
* * * *
19194621 CAAAATTACTAAAATACCCTCGGTTTA
1 TAAAATTACCAAAATACCCTTGATTTA
* * *
19194648 CAAAATTACCAAAATACCCTCGA-TCA
1 TAAAATTACCAAAATACCCTTGATTTA
* *
19194674 GTAAAATTACCAAAATACCCTAG-TCTA
1 -TAAAATTACCAAAATACCCTTGATTTA
* * * *
19194701 TAAAATTGCTAAAATACCCTTGGTTTG
1 TAAAATTACCAAAATACCCTTGATTTA
* ** *
19194728 TAAAATTACCGAAATACCCTCAATTTG
1 TAAAATTACCAAAATACCCTTGATTTA
* *
19194755 TAAAATTACCAAAATACCCCT-AGTTTG
1 TAAAATTACCAAAATACCCTTGA-TTTA
* * *
19194782 TAACATTACCAAAATACCAC-TGGTTTG
1 TAAAATTACCAAAATACC-CTTGATTTA
* * * *
19194809 TGAAATTACCGAAATA-CCTTCAATTTG
1 TAAAATTACCAAAATACCCTT-GATTTA
* *
19194836 TAAAATTACCAAAATACCCCTAATTTA
1 TAAAATTACCAAAATACCCTTGATTTA
* * *
19194863 CAAAGTTA-CAGAAATACCCTTGACTTTC
1 TAAAATTACCA-AAATACCCTTGA-TTTA
* * *
19194891 TAAAAATTA-TAGAAATACCATTGGTTTAA
1 T-AAAATTACCA-AAATACCCTTGATTT-A
* ** * *
19194920 CAAAATTACTGAAATACCCTTGGTTTG
1 TAAAATTACCAAAATACCCTTGATTTA
* * *
19194947 TAGATTTACCAAAACACCCTTG
1 TAAAATTACCAAAATACCCTTG
19194969 TAGGATGAAA
Statistics
Matches: 365, Mismatches: 77, Indels: 28
0.78 0.16 0.06
Matches are distributed among these distances:
25 1 0.00
26 26 0.07
27 288 0.79
28 31 0.08
29 19 0.05
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.34
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCTTGATTTA
Found at i:19194639 original size:81 final size:81
Alignment explanation
Indices: 19194455--19194667 Score: 255
Period size: 81 Copynumber: 2.6 Consensus size: 81
19194445 AATACTTTAG
* * * * *
19194455 TTTACCAAATTACTGAAATACCCTCAAATTGTAAAATTACCAAAGTACCCTTGATTTATAGAATT
1 TTTACAAAATTACTAAAATACCCTCGATTTATAAAATTACCAAAGTACCCTTGATTTATAGAATT
*
19194520 ACTGTTTTACCCTTGA
66 ACTGTTTTACCCTTAA
* * *** * * ***
19194536 TTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTATAGAATT
1 TTTACAAAATTACTAAAATACCCTCGATTTATAAAATTACCAAAGTACCCTTGATTTATAGAATT
19194601 ACTGTTTTACCCTTAA
66 ACTGTTTTACCCTTAA
* * *
19194617 TTTACAAAATTACTAAAATACCCTCGGTTTACAAAATTACCAAAATACCCT
1 TTTACAAAATTACTAAAATACCCTCGATTTATAAAATTACCAAAGTACCCT
19194668 CGATCAGTAA
Statistics
Matches: 104, Mismatches: 28, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
81 104 1.00
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (81 bp):
TTTACAAAATTACTAAAATACCCTCGATTTATAAAATTACCAAAGTACCCTTGATTTATAGAATT
ACTGTTTTACCCTTAA
Found at i:19194682 original size:81 final size:81
Alignment explanation
Indices: 19194455--19194763 Score: 244
Period size: 81 Copynumber: 3.8 Consensus size: 81
19194445 AATACTTTAG
* * * * * * * *
19194455 TTTACCAAATTACTGAAATACCCTCAAATTGTAAAATTACCAAAGTACCCTTGATTTATAGAATT
1 TTTACAAAATTACTAAAATACCCTCGATTTATAAAATTACCAAAATACCCTCGATTTATAAAATT
*
19194520 ACTGTTTTACCCTTGA
66 ACTGTTTTACCCTTAA
* * *** * * *** * *
19194536 TTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTATAGAATT
1 TTTACAAAATTACTAAAATACCCTCGATTTATAAAATTACCAAAATACCCTCGATTTATAAAATT
19194601 ACTGTTTTACCCTTAA
66 ACTGTTTTACCCTTAA
* * *
19194617 TTTACAAAATTACTAAAATACCCTCGGTTTACAAAATTACCAAAATACCCTCGA-TCAGTAAAAT
1 TTTACAAAATTACTAAAATACCCTCGATTTATAAAATTACCAAAATACCCTCGATTTA-TAAAAT
***** *
19194681 TACCAAAATACCC-TAG
65 TACTGTTTTACCCTTAA
* * * * * * * * *
19194697 TCTATAAAATTGCTAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATT
1 TTTACAAAATTACTAAAATACCCTCGATTTATAAAATTACCAAAATACCCTCGATTTATAAAATT
19194762 AC
66 AC
19194764 CAAAATACCC
Statistics
Matches: 179, Mismatches: 47, Indels: 5
0.77 0.20 0.02
Matches are distributed among these distances:
80 59 0.33
81 120 0.67
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.35
Consensus pattern (81 bp):
TTTACAAAATTACTAAAATACCCTCGATTTATAAAATTACCAAAATACCCTCGATTTATAAAATT
ACTGTTTTACCCTTAA
Found at i:19194817 original size:81 final size:81
Alignment explanation
Indices: 19194622--19194884 Score: 316
Period size: 81 Copynumber: 3.3 Consensus size: 81
19194612 CTTAATTTAC
* * ** * * **
19194622 AAAATTACTAAAATACCCTCGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
19194687 AATA-CCCTAGTCTAT
66 AATACCCCTAGTCTAT
* *
19194702 AAAATTGCTAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
* *
19194767 AATACCCCTAGTTTGT
66 AATACCCCTAGTCTAT
* * *
19194783 AACATTACCAAAATACCAC-TGGTTTGTGAAATTACCGAAATACCTTCAATTTGTAAAATTACCA
1 AAAATTACCAAAATACC-CTTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCA
* * *
19194847 AAATACCCCTAATTTAC
65 AAATACCCCTAGTCTAT
*
19194864 AAAGTTA-CAGAAATACCCTTG
1 AAAATTACCA-AAATACCCTTG
19194885 ACTTTCTAAA
Statistics
Matches: 159, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
80 64 0.40
81 94 0.59
82 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
AATACCCCTAGTCTAT
Found at i:19195090 original size:27 final size:27
Alignment explanation
Indices: 19194999--19195090 Score: 116
Period size: 27 Copynumber: 3.4 Consensus size: 27
19194989 ACCCCTATTA
* *
19194999 GGTAAAAAGATCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
19195026 GGTAAAGA-GACCGTAAAGCCCCTGTAG
1 GGTAAA-ATGACCGTAAAGCCCCTGTAG
* *
19195053 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
19195080 GGTAAAATGAC
1 GGTAAAATGAC
19195091 GAATATGCCC
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
27 56 0.97
28 2 0.03
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:19197648 original size:29 final size:30
Alignment explanation
Indices: 19197606--19197666 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 30
19197596 ATTTATGACC
19197606 ATGAGATTGGCGCTAAGTGCGC-GGATTAA
1 ATGAGATTGGCGCTAAGTGCGCGGGATTAA
19197635 ATGAGATTGGCGCTAAGTGCGCGGGATTAA
1 ATGAGATTGGCGCTAAGTGCGCGGGATTAA
19197665 AT
1 AT
19197667 TGTACAGCAC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 22 0.71
30 9 0.29
ACGTcount: A:0.28, C:0.13, G:0.34, T:0.25
Consensus pattern (30 bp):
ATGAGATTGGCGCTAAGTGCGCGGGATTAA
Found at i:19197703 original size:27 final size:27
Alignment explanation
Indices: 19197672--19197849 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
19197662 TAAATTGTAC
*
19197672 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
19197699 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
19197725 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
19197753 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
19197780 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * * *
19197808 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
19197835 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
19197850 GACTTAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:19197738 original size:54 final size:55
Alignment explanation
Indices: 19197672--19197849 Score: 236
Period size: 54 Copynumber: 3.3 Consensus size: 55
19197662 TAAATTGTAC
* **
19197672 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
* * * *
19197727 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
* *
19197780 AGCACTAAGTGTGCGAGTTTGATTATGTGGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGA-TTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
*
19197835 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
19197850 GACTTAATAT
Statistics
Matches: 107, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
53 1 0.01
54 60 0.56
55 46 0.43
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:19197759 original size:81 final size:82
Alignment explanation
Indices: 19197673--19197828 Score: 235
Period size: 81 Copynumber: 1.9 Consensus size: 82
19197663 AAATTGTACA
* *
19197673 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGA-AATGAATATGAT-GCACTAAGT
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGAATGAATATG-TGGCACTAAGT
19197736 GTGCGAATTGACCATGCG
65 GTGCGAATTGACCATGCG
** *
19197754 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGAATGAATATGTGGCACTAAGTG
*
19197819 TGCGAGTTGA
66 TGCGAATTGA
19197829 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 41 0.61
82 26 0.39
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (82 bp):
GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGAATGAATATGTGGCACTAAGTG
TGCGAATTGACCATGCG
Found at i:19199326 original size:26 final size:26
Alignment explanation
Indices: 19199297--19199446 Score: 248
Period size: 26 Copynumber: 5.8 Consensus size: 26
19199287 GAGGAAGTGC
19199297 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
19199323 AAAAGGGCTTATGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACCG
19199349 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
19199375 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* *
19199401 AAAAGGTCTTATGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACCG
19199427 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
19199447 ATTAAAGAGG
Statistics
Matches: 115, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
25 10 0.09
26 105 0.91
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.25
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:19199650 original size:42 final size:42
Alignment explanation
Indices: 19199591--19199682 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
19199581 TAGTCTCCCC
* * ** *
19199591 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTACATACATCCATTGACATTACATGTGATATTG
19199633 AAATGGGCTTACATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTACATACATCCATTGACATTACATGTGATATTG
19199675 AAATGGGC
1 AAATGGGC
19199683 CTATGGGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTACATACATCCATTGACATTACATGTGATATTG
Found at i:19199744 original size:31 final size:31
Alignment explanation
Indices: 19199706--19199814 Score: 173
Period size: 31 Copynumber: 3.5 Consensus size: 31
19199696 CGTTTACAGT
* *
19199706 AAAGGCTTCGGCTCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
19199737 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
19199768 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
19199799 AAAGGGTTCGGCCCAG
1 AAAGGCTTCGGCCCAG
19199815 CAATCGTTAA
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 73 1.00
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:19210831 original size:38 final size:38
Alignment explanation
Indices: 19210773--19210857 Score: 98
Period size: 38 Copynumber: 2.2 Consensus size: 38
19210763 TGCTTAAAGA
* *
19210773 CCCGCAGGCTTCATCCTGGTAAAATATCTGGGTTAAAT
1 CCCGCAGGCTTCATCCTGGTAAAATATCCGGGATAAAT
* ** **
19210811 CCCGCAGGCTTCGTGTTGGTATTATATCCGGGATAAAT
1 CCCGCAGGCTTCATCCTGGTAAAATATCCGGGATAAAT
*
19210849 CCCACAGGC
1 CCCGCAGGC
19210858 CTAGTGCTGG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.27
Consensus pattern (38 bp):
CCCGCAGGCTTCATCCTGGTAAAATATCCGGGATAAAT
Found at i:19210869 original size:38 final size:38
Alignment explanation
Indices: 19210796--19210880 Score: 107
Period size: 38 Copynumber: 2.2 Consensus size: 38
19210786 TCCTGGTAAA
* * * * * *
19210796 ATATCTGGGTTAAATCCCGCAGGCTTCGTGTTGGTATT
1 ATATCCGGGATAAATCCCACAGGCCTAGTGCTGGTATT
19210834 ATATCCGGGATAAATCCCACAGGCCTAGTGCTGGTATT
1 ATATCCGGGATAAATCCCACAGGCCTAGTGCTGGTATT
*
19210872 ATATTCGGG
1 ATATCCGGG
19210881 CCTTCGTGCC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (38 bp):
ATATCCGGGATAAATCCCACAGGCCTAGTGCTGGTATT
Found at i:19210997 original size:43 final size:43
Alignment explanation
Indices: 19210873--19210984 Score: 197
Period size: 43 Copynumber: 2.6 Consensus size: 43
19210863 GCTGGTATTA
* *
19210873 TATTCGGGCCTTCGTGCCTAGCAAGCTTCGTGCTGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
19210916 TATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
19210959 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
19210985 GTAATGCCGG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.11, C:0.25, G:0.33, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:19213205 original size:45 final size:45
Alignment explanation
Indices: 19213009--19213266 Score: 257
Period size: 45 Copynumber: 5.9 Consensus size: 45
19212999 ATATCATACA
* ** * *
19213009 ATGCCAACGTCCCAGACGTGGTCTTACATG-CTA-TCTTATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACATATATCG
*
19213052 ATGCC-ACTGTCCCAGACAG-GGTCTTACAC-AAATCA-A-ATA-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAAAACACATATATCG
* * * * * * *
19213093 ATGCCGATGTCCTAGACATGGTCTTACTCGTAACCACATAT-T-G
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACATATATCG
* *
19213136 ATGCCAACATCCCAGATGTGGTCTTACACGAAAACACATATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACATATATCG
** *
19213181 ATGTTAATGTCCCAGACGTGGTCTTACACGAAAACACATATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACATATATCG
*
19213226 ATGCCAACGTCCCAGACGTGGTCTTACATGAAAACACATAT
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACATAT
19213267 CAAAACCCTA
Statistics
Matches: 173, Mismatches: 30, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
41 24 0.14
42 10 0.06
43 57 0.33
44 4 0.02
45 78 0.45
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (45 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACATATATCG
Found at i:19217651 original size:137 final size:137
Alignment explanation
Indices: 19217405--19217691 Score: 520
Period size: 137 Copynumber: 2.1 Consensus size: 137
19217395 CATTGGGCCT
** *
19217405 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACCGGGCCTT
*
19217470 AGCCCCTTATTCAGATAGCAGTATAGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATAGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
19217535 CATATGC
131 CATATGC
19217542 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACCGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACCGGGCCTT
* *
19217607 AGCCCCTTATTCAGATAATAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATAGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
19217672 CATATGC
131 CATATGC
19217679 AAGCCCATTTGGG
1 AAGCCCATTTGGG
19217692 GAGACTACTC
Statistics
Matches: 144, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 144 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACCGGGCCTT
AGCCCCTTATTCAGATAACAGTATAGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:19218740 original size:44 final size:44
Alignment explanation
Indices: 19218677--19218760 Score: 159
Period size: 44 Copynumber: 1.9 Consensus size: 44
19218667 AAATTTTCAT
19218677 AATTTTTGGTTTAGCCAATCAATACCAAATTTTTCTCAAATGAA
1 AATTTTTGGTTTAGCCAATCAATACCAAATTTTTCTCAAATGAA
*
19218721 AATTTTTGGTTTAGCCAATCAATACCAGATTTTTCTCAAA
1 AATTTTTGGTTTAGCCAATCAATACCAAATTTTTCTCAAA
19218761 GTTTCCCATG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.39
Consensus pattern (44 bp):
AATTTTTGGTTTAGCCAATCAATACCAAATTTTTCTCAAATGAA
Found at i:19219560 original size:26 final size:26
Alignment explanation
Indices: 19219524--19219607 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
19219514 CATGAAATTC
19219524 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
19219550 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
19219576 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
19219602 TTATCA
1 TTATCA
19219608 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:19223725 original size:39 final size:39
Alignment explanation
Indices: 19223666--19223746 Score: 128
Period size: 39 Copynumber: 2.1 Consensus size: 39
19223656 AAACATATAT
* *
19223666 TAATGATGTTCAAACTATGACATAATTAAAGACTCATAC
1 TAATGATGTTCAAACTATGACATAATTAAAGACACAAAC
19223705 TAATGATGTTCAAA-TCATGACATAATTAAAGACACAAAC
1 TAATGATGTTCAAACT-ATGACATAATTAAAGACACAAAC
19223744 TAA
1 TAA
19223747 AATAACTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
38 1 0.03
39 38 0.97
ACGTcount: A:0.47, C:0.15, G:0.10, T:0.28
Consensus pattern (39 bp):
TAATGATGTTCAAACTATGACATAATTAAAGACACAAAC
Found at i:19224579 original size:25 final size:25
Alignment explanation
Indices: 19224531--19224582 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
19224521 TTTGGCTTGA
*
19224531 CATTTACTAGGCAATATCGGATATT
1 CATTTACTAGGCAATATCGAATATT
*
19224556 CATTTATTAGGCAATAT-GAAATATT
1 CATTTACTAGGCAATATCG-AATATT
19224581 CA
1 CA
19224583 AATTATTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 23 0.96
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (25 bp):
CATTTACTAGGCAATATCGAATATT
Found at i:19228788 original size:17 final size:16
Alignment explanation
Indices: 19228729--19228788 Score: 50
Period size: 17 Copynumber: 3.6 Consensus size: 16
19228719 GAGACAGCCA
* *
19228729 CCATACATGCACTTAAT
1 CCATTCATGCA-TTTAT
19228746 CCATTCATGCATTCTAT
1 CCATTCATGCATT-TAT
*
19228763 -CATCCCATGCATTTGAT
1 CCAT-TCATGCATTT-AT
19228780 CCATTCATG
1 CCATTCATG
19228789 GACTAGCCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
16 6 0.17
17 26 0.74
18 3 0.09
ACGTcount: A:0.27, C:0.30, G:0.08, T:0.35
Consensus pattern (16 bp):
CCATTCATGCATTTAT
Found at i:19229269 original size:30 final size:30
Alignment explanation
Indices: 19229184--19229280 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
19229174 AAACTAAAAA
* *
19229184 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
* *** * * *
19229214 TGAGCTGAGGCCAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
19229244 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
19229273 ATGAGCTA
1 -TGAGCTA
19229281 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
29 1 0.02
30 49 0.98
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.27
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
Found at i:19229528 original size:22 final size:22
Alignment explanation
Indices: 19229493--19229562 Score: 88
Period size: 22 Copynumber: 3.2 Consensus size: 22
19229483 TTATGTACTA
* *
19229493 TTAAACAGAGAGCACTAAAGTG
1 TTAAACAGATAGCACTAATGTG
*
19229515 TTATACAGATAGCAC-AGATGTG
1 TTAAACAGATAGCACTA-ATGTG
*
19229537 CTAAACAGATAGCACTAATGTG
1 TTAAACAGATAGCACTAATGTG
19229559 TTAA
1 TTAA
19229563 CAATCAAAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
21 1 0.03
22 38 0.95
23 1 0.03
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.24
Consensus pattern (22 bp):
TTAAACAGATAGCACTAATGTG
Found at i:19230473 original size:21 final size:21
Alignment explanation
Indices: 19230447--19230498 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
19230437 GACACATAAA
19230447 TGCCTGAAATGACACACGAGG
1 TGCCTGAAATGACACACGAGG
* *
19230468 TGCCTGATACGACACACGAGG
1 TGCCTGAAATGACACACGAGG
19230489 TGCCTGAAAT
1 TGCCTGAAAT
19230499 ATGACACATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.31, C:0.25, G:0.27, T:0.17
Consensus pattern (21 bp):
TGCCTGAAATGACACACGAGG
Found at i:19230521 original size:21 final size:21
Alignment explanation
Indices: 19230437--19230535 Score: 83
Period size: 21 Copynumber: 4.6 Consensus size: 21
19230427 ATCAGTATAC
*
19230437 GACACATAAA-TGCCTGAAAT
1 GACACATAAAGTGCCTGATAT
** * *
19230457 GACACACGAGGTGCCTGATAC
1 GACACATAAAGTGCCTGATAT
** *
19230478 GACACACGAGGTGCCTGAAATAT
1 GACACATAAAGTGCCTG--ATAT
19230501 GACACATAAAGTGCCTGATAT
1 GACACATAAAGTGCCTGATAT
19230522 ACGACACATAAAGT
1 --GACACATAAAGT
19230536 TTCTAATCGG
Statistics
Matches: 65, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
20 7 0.11
21 29 0.45
23 29 0.45
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.18
Consensus pattern (21 bp):
GACACATAAAGTGCCTGATAT
Found at i:19230530 original size:23 final size:22
Alignment explanation
Indices: 19230433--19230535 Score: 95
Period size: 23 Copynumber: 4.7 Consensus size: 22
19230423 CCTGATCAGT
19230433 ATACGACACATAAA-TGCCTGA
1 ATACGACACATAAAGTGCCTGA
* ** *
19230454 A-ATGACACACGAGGTGCCTG-
1 ATACGACACATAAAGTGCCTGA
** *
19230474 ATACGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTG-A
*
19230497 ATATGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
19230519 TATACGACACATAAAGT
1 -ATACGACACATAAAGT
19230536 TTCTAATCGG
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
20 9 0.13
21 25 0.37
22 1 0.01
23 32 0.48
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.18
Consensus pattern (22 bp):
ATACGACACATAAAGTGCCTGA
Found at i:19232238 original size:25 final size:25
Alignment explanation
Indices: 19232190--19232241 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
19232180 TTTGGCTTGA
*
19232190 CATTTACTAGGCAATATCGGATATT
1 CATTTACTAGGCAATATCGAATATT
*
19232215 CATTTATTAGGCAATAT-GAAATATT
1 CATTTACTAGGCAATATCG-AATATT
19232240 CA
1 CA
19232242 AATTATTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 23 0.96
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (25 bp):
CATTTACTAGGCAATATCGAATATT
Found at i:19235362 original size:3 final size:3
Alignment explanation
Indices: 19235354--19235386 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
19235344 GAACAGGGTT
19235354 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
19235387 AAAGCAACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:19238205 original size:47 final size:47
Alignment explanation
Indices: 19238151--19238341 Score: 251
Period size: 47 Copynumber: 4.1 Consensus size: 47
19238141 TTAGGATTTT
** * *
19238151 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
19238198 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
**
19238245 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
19238292 ATGTGATGAACGTGGAAGTAT--ATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAA-CATGCATATATGTGATAAGGCCGAATGGCCA
19238339 ATG
1 ATG
19238342 CGAAACGTGT
Statistics
Matches: 129, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
47 124 0.96
48 3 0.02
49 2 0.02
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:19238226 original size:25 final size:25
Alignment explanation
Indices: 19238198--19238276 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
19238188 CGAATGGCCA
19238198 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
* * *
19238223 ATGTGAT-AAGGCCG-A-ATGGC-CA-
1 ATGTGATGAATG-TGAACAT-GCATAT
19238245 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
19238270 ATGTGAT
1 ATGTGAT
19238277 AAGGCAAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 8 0.20
23 9 0.22
24 9 0.22
25 15 0.37
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.29
Consensus pattern (25 bp):
ATGTGATGAATGTGAACATGCATAT
Found at i:19238251 original size:22 final size:22
Alignment explanation
Indices: 19238180--19238251 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
19238170 GTATATATGA
19238180 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
19238202 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
19238227 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
19238249 GAT
1 GAT
19238252 GAATGTGAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:19238406 original size:46 final size:46
Alignment explanation
Indices: 19238315--19238410 Score: 131
Period size: 46 Copynumber: 2.1 Consensus size: 46
19238305 GGAAGTATAT
* *
19238315 ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACGTGTAGGAGATGG
* * *
19238361 ATATGTGGTAAAGCCAAATGGCTAATGTGAGA-GATGTAGGGGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACG-TGTAGGAGATGG
19238407 ATAT
1 ATAT
19238411 ATATATTGTG
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
45 1 0.02
46 43 0.98
ACGTcount: A:0.33, C:0.08, G:0.33, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACGTGTAGGAGATGG
Found at i:19250521 original size:48 final size:48
Alignment explanation
Indices: 19250449--19250642 Score: 334
Period size: 48 Copynumber: 4.0 Consensus size: 48
19250439 TACAAGATAT
* *
19250449 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
19250497 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
19250545 ATATGTATACGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
19250593 ATATGTATATGTGGTAAAGCCGAATAGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
19250641 AT
1 AT
19250643 GTGTGTATAT
Statistics
Matches: 138, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 138 1.00
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:19250839 original size:37 final size:37
Alignment explanation
Indices: 19250783--19250885 Score: 161
Period size: 37 Copynumber: 2.8 Consensus size: 37
19250773 GGAAATATAT
*
19250783 TCCGGGTAAGACCTGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
19250820 TCTGGTTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
19250857 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
19250886 GGACTATTCG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:19252389 original size:40 final size:40
Alignment explanation
Indices: 19252170--19252376 Score: 353
Period size: 40 Copynumber: 5.2 Consensus size: 40
19252160 AGTTATATAT
*
19252170 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGA
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGA
19252210 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGA
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGA
*
19252250 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAATGATGA
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGA
* * *
19252290 ATCTGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGA
19252330 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGAT-A
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGA
19252369 TATCCGGG
1 -ATCCGGG
19252377 TTAAACCTCG
Statistics
Matches: 157, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
40 157 1.00
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGA
Found at i:19252389 original size:120 final size:119
Alignment explanation
Indices: 19252174--19252400 Score: 350
Period size: 120 Copynumber: 1.9 Consensus size: 119
19252164 ATATATATCC
*
19252174 GGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGAATCCGGGCTAAGTTCCGAAGAGCATTCGT
1 GGGCTAAGTCCCGAAGAGCATTCGTGCTAGTAATGAATCCGGGCTAAGTTCCGAAGAGCATTCGT
** *
19252239 GCTAGTGATGAATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAATGATGAATCT
66 GCTAGTGATGAATCCGGGCTAACCTCCGAAG-GCATTCATGCTAATGATGAATCT
* *
19252294 GGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATGTATCCGGGCTAAGTTCCGAAGAGCATTCGT
1 GGGCTAAGTCCCGAAGAGCATTCGTGCTAGTAATGAATCCGGGCTAAGTTCCGAAGAGCATTCGT
*
19252359 GCTAGTGAT-ATATCCGGGTTAAACCT-CGAAGGCATTCATGCT
66 GCTAGTGATGA-ATCCGGGCT-AACCTCCGAAGGCATTCATGCT
19252401 GGAGTTATGA
Statistics
Matches: 98, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
119 11 0.11
120 84 0.86
121 3 0.03
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (119 bp):
GGGCTAAGTCCCGAAGAGCATTCGTGCTAGTAATGAATCCGGGCTAAGTTCCGAAGAGCATTCGT
GCTAGTGATGAATCCGGGCTAACCTCCGAAGGCATTCATGCTAATGATGAATCT
Found at i:19252452 original size:28 final size:27
Alignment explanation
Indices: 19252412--19252566 Score: 103
Period size: 28 Copynumber: 5.5 Consensus size: 27
19252402 GAGTTATGAG
* *
19252412 GCACTGTGTGTGCAAGTTCTTCAACCGA
1 GCACTATGTGTGCAAGTTCTT-AATCGA
* * * * *
19252440 GCACTATGTGTGCCAGATCAGTAGTTGA
1 GCACTATGTGTGCAAGTTC-TTAATCGA
** * *
19252468 GGCACTATACGTGCGAGTTCTTCAATCAA
1 -GCACTATGTGTGCAAGTTCTT-AATCGA
* ** *
19252497 GCACTATGTGTGCGAGATTGGTAATTGA
1 GCACTATGTGTGCAAG-TTCTTAATCGA
19252525 GGCACTATGTGTGCAAGTTCTTTAATCGA
1 -GCACTATGTGTGCAAGTTC-TTAATCGA
*
19252554 GCGCTATGTGTGC
1 GCACTATGTGTGC
19252567 GAAATCAGTC
Statistics
Matches: 95, Mismatches: 26, Indels: 12
0.71 0.20 0.09
Matches are distributed among these distances:
28 52 0.55
29 43 0.45
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.30
Consensus pattern (27 bp):
GCACTATGTGTGCAAGTTCTTAATCGA
Found at i:19252500 original size:57 final size:57
Alignment explanation
Indices: 19252421--19252575 Score: 202
Period size: 57 Copynumber: 2.7 Consensus size: 57
19252411 GGCACTGTGT
* * *
19252421 GTGCAAGTTCTTCAACCGAGCACTATGTGTGCCAGATCAGTAGTTGAGGCACTATAC
1 GTGCAAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAATTGAGGCACTATAC
* * ** **
19252478 GTGCGAGTTCTTCAATCAAGCACTATGTGTGCGAGATTGGTAATTGAGGCACTATGT
1 GTGCAAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAATTGAGGCACTATAC
* * *
19252535 GTGCAAGTTCTTTAATCGAGCGCTATGTGTGCGAAATCAGT
1 GTGCAAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGT
19252576 CAGTGGGTAC
Statistics
Matches: 82, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
57 82 1.00
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (57 bp):
GTGCAAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAATTGAGGCACTATAC
Found at i:19256163 original size:48 final size:48
Alignment explanation
Indices: 19256091--19256284 Score: 325
Period size: 48 Copynumber: 4.0 Consensus size: 48
19256081 TACAAGATAT
* *
19256091 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
19256139 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
19256187 ATATGTATACGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
19256235 ATATGTATATGTGGTAAAGCCGAATAGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
19256283 AT
1 AT
19256285 GTGTGTATAT
Statistics
Matches: 136, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 136 1.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:19256479 original size:37 final size:37
Alignment explanation
Indices: 19256429--19256527 Score: 180
Period size: 37 Copynumber: 2.7 Consensus size: 37
19256419 ATATATTCCT
19256429 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
*
19256466 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
*
19256503 GGTAAGACCCGATAACTACGTGTGG
1 GGTAAGACCCGATGACTACGTGTGG
19256528 GGACTATTCG
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.24
Consensus pattern (37 bp):
GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
Found at i:19257881 original size:47 final size:48
Alignment explanation
Indices: 19257828--19257918 Score: 130
Period size: 47 Copynumber: 1.9 Consensus size: 48
19257818 TAAATGTATT
* * *
19257828 AATGCAAGACATTAAACAAAGATGCATTTAACCAACA-AAACATTATA
1 AATGCAAAACATTAAACAAAGATACATTTAACAAACACAAACATTATA
* *
19257875 AATGCAAAACATTAAATAAAGATATATTTAACAAACACAAACAT
1 AATGCAAAACATTAAACAAAGATACATTTAACAAACACAAACAT
19257919 AATTAAAACT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
47 32 0.84
48 6 0.16
ACGTcount: A:0.56, C:0.15, G:0.07, T:0.22
Consensus pattern (48 bp):
AATGCAAAACATTAAACAAAGATACATTTAACAAACACAAACATTATA
Found at i:19258304 original size:8 final size:8
Alignment explanation
Indices: 19258281--19258317 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
19258271 CTTAATAATT
*
19258281 ATAAAAAA
1 ATAAAATA
*
19258289 ATAGAATA
1 ATAAAATA
19258297 ATAAAATA
1 ATAAAATA
19258305 ATAAAATA
1 ATAAAATA
19258313 ATAAA
1 ATAAA
19258318 GGCTAATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (8 bp):
ATAAAATA
Found at i:19267155 original size:29 final size:29
Alignment explanation
Indices: 19267121--19267194 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
19267111 TAATCAACCG
*
19267121 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
19267150 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
19267179 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
19267195 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:19275277 original size:29 final size:29
Alignment explanation
Indices: 19275243--19275316 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
19275233 TAATCAACCG
*
19275243 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
19275272 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
19275301 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
19275317 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:19283461 original size:46 final size:46
Alignment explanation
Indices: 19283411--19283583 Score: 194
Period size: 46 Copynumber: 3.7 Consensus size: 46
19283401 TGGTTGAGCA
19283411 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
19283457 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
19283502 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
19283550 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
19283584 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 12, Indels: 20
0.77 0.09 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 4 0.04
46 59 0.56
47 28 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:19283567 original size:93 final size:93
Alignment explanation
Indices: 19283408--19283578 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
19283398 GGATGGTTGA
* *
19283408 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
19283473 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
19283501 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CTCGAGCTCGTTGAG
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTC-CGAACTCGTTGAG
19283565 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
19283579 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 1 0.01
93 73 0.99
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:19287353 original size:13 final size:13
Alignment explanation
Indices: 19287321--19287353 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
19287311 TTGACGATTT
*
19287321 TTAGTTAATTTAG
1 TTAGTTTATTTAG
19287334 TTAGTTTATTTAG
1 TTAGTTTATTTAG
19287347 TTAGTTT
1 TTAGTTT
19287354 TTATTACATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.24, C:0.00, G:0.15, T:0.61
Consensus pattern (13 bp):
TTAGTTTATTTAG
Found at i:19288893 original size:62 final size:62
Alignment explanation
Indices: 19288796--19288919 Score: 239
Period size: 62 Copynumber: 2.0 Consensus size: 62
19288786 CAACTAGCTC
19288796 AATTTTAGCTCTCTTCAGCTTGTGCATGTTATTTGCTAGAATAAACAAATAATTTGGTTATA
1 AATTTTAGCTCTCTTCAGCTTGTGCATGTTATTTGCTAGAATAAACAAATAATTTGGTTATA
*
19288858 AATTTTAGCTCTCTTCAGCTTGTGCATTTTATTTGCTAGAATAAACAAATAATTTGGTTATA
1 AATTTTAGCTCTCTTCAGCTTGTGCATGTTATTTGCTAGAATAAACAAATAATTTGGTTATA
19288920 GTTATTTTAG
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.43
Consensus pattern (62 bp):
AATTTTAGCTCTCTTCAGCTTGTGCATGTTATTTGCTAGAATAAACAAATAATTTGGTTATA
Found at i:19289046 original size:21 final size:21
Alignment explanation
Indices: 19289020--19289059 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
19289010 TTAAATAAGG
19289020 GTTTTAAATATGTCCTAGTAT
1 GTTTTAAATATGTCCTAGTAT
*
19289041 GTTTTAAATATGTCTTAGT
1 GTTTTAAATATGTCCTAGT
19289060 TTAGACATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.07, G:0.15, T:0.50
Consensus pattern (21 bp):
GTTTTAAATATGTCCTAGTAT
Found at i:19290474 original size:32 final size:32
Alignment explanation
Indices: 19290433--19290495 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
19290423 GGAAAACGTT
19290433 CATTAATTTTGAAAACTCGCACAGCCTAACAC
1 CATTAATTTTGAAAACTCGCACAGCCTAACAC
*
19290465 CATTAATTTTGAAAACTCGCGCAGCCTAACA
1 CATTAATTTTGAAAACTCGCACAGCCTAACA
19290496 TTAGCAGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.27, G:0.11, T:0.25
Consensus pattern (32 bp):
CATTAATTTTGAAAACTCGCACAGCCTAACAC
Found at i:19293747 original size:29 final size:30
Alignment explanation
Indices: 19293714--19293770 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
19293704 TCCTTAACTC
*
19293714 AAAC-TTTGGAAAATTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACACTTTTGCCCCT
* *
19293743 AAACTTTTGCATATTTACACTTTTGCCC
1 AAACTTTTGCAAAATTACACTTTTGCCC
19293771 TTAGGCTCGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.28, C:0.25, G:0.09, T:0.39
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACACTTTTGCCCCT
Found at i:19294708 original size:27 final size:26
Alignment explanation
Indices: 19294661--19294711 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
19294651 CGAGGCTGCC
*
19294661 AGATATTGTGACGAAGTCACCAGAAT
1 AGATATTGTGACGAAGCCACCAGAAT
* *
19294687 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
19294712 TTGCAGCGAG
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:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAT
Found at i:19295407 original size:27 final size:27
Alignment explanation
Indices: 19295207--19295400 Score: 226
Period size: 27 Copynumber: 7.2 Consensus size: 27
19295197 AGGGGCAAAA
* * * * *
19295207 CGGTAATTTTACCCCACAAGCGTATCT
1 CGGTAATTCTACCCTACAGGGGTATTT
*
19295234 CGATAATTCTACCCTACAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
* * *
19295261 CAGTATTTCTACCCTACAAGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
* *
19295288 CGGTAATTCCATCCTACAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
* *
19295315 CGGTAATTCTACCATATAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
**
19295342 CAATAATTCTACCCTACAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
* *
19295369 CGGTAATTTTACCTTACAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTT
*
19295396 TGGTA
1 CGGTA
19295401 CTTTTACAAA
Statistics
Matches: 139, Mismatches: 28, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 139 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
CGGTAATTCTACCCTACAGGGGTATTT
Found at i:19295415 original size:27 final size:27
Alignment explanation
Indices: 19295302--19295428 Score: 94
Period size: 27 Copynumber: 4.7 Consensus size: 27
19295292 AATTCCATCC
* * *
19295302 TACAGGGGTATTTCGGTAATTCTACCA
1 TACAGGGGTATTTTGGTAATTTTACAA
* *** * **
19295329 TATAGGGGTATTTCAATAATTCTACCC
1 TACAGGGGTATTTTGGTAATTTTACAA
* **
19295356 TACAGGGGTATTTCGGTAATTTTACCT
1 TACAGGGGTATTTTGGTAATTTTACAA
*
19295383 TACAGGGGTATTTTGGTACTTTTACAA
1 TACAGGGGTATTTTGGTAATTTTACAA
**
19295410 -ATCAGGATTATTTTGGTAA
1 TA-CAGGGGTATTTTGGTAA
19295429 ACTAAAGTAT
Statistics
Matches: 83, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
26 1 0.01
27 82 0.99
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (27 bp):
TACAGGGGTATTTTGGTAATTTTACAA
Found at i:19295422 original size:81 final size:81
Alignment explanation
Indices: 19295228--19295422 Score: 205
Period size: 81 Copynumber: 2.4 Consensus size: 81
19295218 CCCCACAAGC
* * ** * * * *
19295228 GTATCTCGATAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTA
1 GTATTTCGGTAATTCTACCAAATAGGAGTATTTCAATAATTCTACCCTACAAGGGTATTTCGGTA
19295293 ATTCCATCCTACAGGG
66 ATTCCATCCTACAGGG
* * *
19295309 GTATTTCGGTAATTCTACCATATAGGGGTATTTCAATAATTCTACCCTACAGGGGTATTTCGGTA
1 GTATTTCGGTAATTCTACCAAATAGGAGTATTTCAATAATTCTACCCTACAAGGGTATTTCGGTA
**
19295374 ATTTTA-CCTTACAGGG
66 ATTCCATCC-TACAGGG
* * * *
19295390 GTATTTTGGTACTTTTA-CAAATCAGGATTATTT
1 GTATTTCGGTAATTCTACCAAAT-AGGAGTATTT
19295423 TGGTAAACTA
Statistics
Matches: 97, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
80 6 0.06
81 91 0.94
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.37
Consensus pattern (81 bp):
GTATTTCGGTAATTCTACCAAATAGGAGTATTTCAATAATTCTACCCTACAAGGGTATTTCGGTA
ATTCCATCCTACAGGG
Found at i:19306770 original size:15 final size:14
Alignment explanation
Indices: 19306729--19306775 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
19306719 AAAACATTCC
*
19306729 TCACTTTTTCTTGT
1 TCACTTTTTCTTTT
*
19306743 TCACTTTCATCTTTT
1 TCACTTT-TTCTTTT
19306758 TCACTTGTTTCTTTT
1 TCACTT-TTTCTTTT
19306773 TCA
1 TCA
19306776 AGCTCTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 7 0.25
15 20 0.71
16 1 0.04
ACGTcount: A:0.11, C:0.23, G:0.04, T:0.62
Consensus pattern (14 bp):
TCACTTTTTCTTTT
Found at i:19310432 original size:84 final size:83
Alignment explanation
Indices: 19310291--19310459 Score: 275
Period size: 84 Copynumber: 2.0 Consensus size: 83
19310281 AATTCGACCA
* *
19310291 ATACTCTGTTCAAGAATGATACTTCTCCATTTTAACGATCAGGCAACAAACGACTCGAATCAACT
1 ATACTCTATTCAAGAACGATACTTCTCCATTTTAACGATCAGGCAACAAACGACTCGAATCAACT
*
19310356 CACGAGACGAGTTCGTATC
66 CACGAGACAAGTT-GTATC
*
19310375 ATACTCTATTCAAGAACGATACTTCTCCATTTTAACGATCGGGCAACAAACGACTCGAATCAACT
1 ATACTCTATTCAAGAACGATACTTCTCCATTTTAACGATCAGGCAACAAACGACTCGAATCAACT
* *
19310440 CATGAGATAAGTTGTATC
66 CACGAGACAAGTTGTATC
19310458 AT
1 AT
19310460 TTGGTATCAG
Statistics
Matches: 79, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
83 7 0.09
84 72 0.91
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (83 bp):
ATACTCTATTCAAGAACGATACTTCTCCATTTTAACGATCAGGCAACAAACGACTCGAATCAACT
CACGAGACAAGTTGTATC
Found at i:19314377 original size:83 final size:84
Alignment explanation
Indices: 19314233--19314400 Score: 257
Period size: 83 Copynumber: 2.0 Consensus size: 84
19314223 AATTCAACCA
*
19314233 ATACTCTGTTCAAGAATGATACTTCTCCATTTTAACGATCGGGCAACAAACAACTCAAATCAACT
1 ATACTCTGTTCAAGAATGATACTTCTCCATTTTAACGATCGAGCAACAAACAACTCAAATCAACT
*
19314298 CACGAGATGAGTTC-TATC
66 CACGAGACGAGTTCGTATC
* * * ** *
19314316 ATACTCTGTTCAAGAATGATACTTCTTCATTTTAACGATCGAGTAACACATGACTCGAATCAACT
1 ATACTCTGTTCAAGAATGATACTTCTCCATTTTAACGATCGAGCAACAAACAACTCAAATCAACT
19314381 CACGAGACGAGTTCGTATC
66 CACGAGACGAGTTCGTATC
19314400 A
1 A
19314401 CTAATGTGAA
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
83 71 0.93
84 5 0.07
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (84 bp):
ATACTCTGTTCAAGAATGATACTTCTCCATTTTAACGATCGAGCAACAAACAACTCAAATCAACT
CACGAGACGAGTTCGTATC
Found at i:19318324 original size:46 final size:45
Alignment explanation
Indices: 19318271--19318446 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 45
19318261 TATTTGGGCA
19318271 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
19318317 TCCGAACTCATTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* * *
19318364 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*
19318410 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
19318447 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 16, Indels: 16
0.77 0.12 0.12
Matches are distributed among these distances:
44 3 0.03
45 3 0.03
46 65 0.61
47 30 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:19318426 original size:93 final size:93
Alignment explanation
Indices: 19318267--19318438 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
19318257 AGGATATTTG
* *
19318267 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCGAACTCATTGAG
19318332 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
19318360 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATACGAACG-CCTGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCC-GAACTCATTGA
19318424 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
19318439 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:19322776 original size:6 final size:6
Alignment explanation
Indices: 19322749--19322852 Score: 79
Period size: 6 Copynumber: 16.8 Consensus size: 6
19322739 TATCAAAACT
* * * *
19322749 AGAATC AAAATG AGAATT AGAATC AGAATC AG-GTGAC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
19322798 AGTATC AGGTAA-C AGAATC AGAATC AGTATC AGGTAA-C AGAATC AGAATC
1 AGAATC A-G-AATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
19322848 AGAAT
1 AGAAT
19322853 GTGAATGCAA
Statistics
Matches: 78, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
5 5 0.06
6 61 0.78
7 9 0.12
8 3 0.04
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:19322795 original size:25 final size:25
Alignment explanation
Indices: 19322761--19322852 Score: 148
Period size: 25 Copynumber: 3.7 Consensus size: 25
19322751 AATCAAAATG
* *
19322761 AGAATTAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
19322786 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
19322811 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
19322836 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
19322853 GTGAATGCAA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 63 1.00
ACGTcount: A:0.46, C:0.14, G:0.21, T:0.20
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:19322848 original size:19 final size:19
Alignment explanation
Indices: 19322767--19322849 Score: 65
Period size: 19 Copynumber: 4.7 Consensus size: 19
19322757 AATGAGAATT
*
19322767 AGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGGTAAC
*
19322786 AGAATCAGAATCA-GTATC
1 AGAATCAGAATCAGGTAAC
*
19322804 AG-GT---AA-CA-G-AATC
1 AGAATCAGAATCAGGTAA-C
*
19322817 AGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGGTAAC
19322836 AGAATCAGAATCAG
1 AGAATCAGAATCAG
19322850 AATGTGAATG
Statistics
Matches: 49, Mismatches: 7, Indels: 16
0.68 0.10 0.22
Matches are distributed among these distances:
12 1 0.02
13 6 0.12
14 3 0.06
17 2 0.04
18 7 0.14
19 28 0.57
20 2 0.04
ACGTcount: A:0.45, C:0.16, G:0.22, T:0.18
Consensus pattern (19 bp):
AGAATCAGAATCAGGTAAC
Found at i:19323010 original size:27 final size:26
Alignment explanation
Indices: 19322970--19323034 Score: 94
Period size: 27 Copynumber: 2.5 Consensus size: 26
19322960 AGCATGGCTG
*
19322970 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
**
19322996 CCAGATACAGATATTGTGGTAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
19323023 CCAGAACAGATA
1 CCAGAACAGATA
19323035 ATATGGCGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
26 12 0.34
27 23 0.66
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:19323236 original size:22 final size:22
Alignment explanation
Indices: 19323208--19323272 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
19323198 GCAAATACGT
*
19323208 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* * *
19323230 TTGGCACAGAGCCAT-GTGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
19323252 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
19323273 AAGGCTTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.29, C:0.23, G:0.28, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:19323729 original size:27 final size:27
Alignment explanation
Indices: 19323699--19324033 Score: 376
Period size: 27 Copynumber: 12.4 Consensus size: 27
19323689 GGGGCAAAAT
* *
19323699 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
19323726 GGTAATTCTACCCTACAGGGGTTTTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
19323753 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * * *
19323780 GATAATTCTATCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
19323807 AGTAATTCTACCCTACAAGAGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
19323834 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* *
19323861 GGT-ATTTCTATCCTACAGGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
19323888 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
19323915 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
19323942 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
19323969 AGTAATTCTACCCTATAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
19323996 AGTAATTCTACCCTA-AAGGGGTATTTC
1 GGTAATTTTACCCTACAA-GGGTATTTC
19324023 GGTAATTTTAC
1 GGTAATTTTAC
19324034 AAATTGAGGG
Statistics
Matches: 268, Mismatches: 33, Indels: 14
0.85 0.10 0.04
Matches are distributed among these distances:
26 11 0.04
27 248 0.93
28 9 0.03
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:19323746 original size:54 final size:54
Alignment explanation
Indices: 19323703--19324026 Score: 461
Period size: 54 Copynumber: 6.0 Consensus size: 54
19323693 CAAAATGGTA
* * *
19323703 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTTTTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGT
* * *
19323756 ATTTCTACCCTACAAGGGTATTTCGATAATTCTATCCTACAGGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGT
* * * *
19323810 AATTCTACCCTACAAGAGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGT
* * *
19323864 ATTTCTATCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGT
* * *
19323918 ATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGT
* * * *
19323972 AATTCTACCCTATAAGGGTATTTCAGTAATTCTACCCTAAAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGT
19324026 A
1 A
19324027 ATTTTACAAA
Statistics
Matches: 237, Mismatches: 33, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
53 4 0.02
54 233 0.98
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGT
Found at i:19324044 original size:27 final size:27
Alignment explanation
Indices: 19324014--19324215 Score: 234
Period size: 27 Copynumber: 7.6 Consensus size: 27
19324004 TACCCTAAAG
*
19324014 GGGTATTTCGGTAATTTTACAAATTGA
1 GGGTATTTCGGTAATTTTACAAATCGA
**
19324041 GGGTATTTTAGTAATTTTAC-AATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
19324067 CGGTATTTTGGTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
19324094 GGGTATTTCAGTAATTTTAC-AATTGA
1 GGGTATTTCGGTAATTTTACAAATCGA
*
19324120 CGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* * *
19324147 GGATATTTGGGTAATTTTATAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
19324174 -GGTACTTT-GGTAATTTTAC-AATTGG
1 GGGTA-TTTCGGTAATTTTACAAATCGA
*
19324199 GGGTATTTCCGTAATTT
1 GGGTATTTCGGTAATTT
19324216 GGTAAACTAA
Statistics
Matches: 149, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
25 7 0.05
26 70 0.47
27 72 0.48
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.42
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAATCGA
Found at i:19324044 original size:54 final size:53
Alignment explanation
Indices: 19323716--19324214 Score: 254
Period size: 54 Copynumber: 9.3 Consensus size: 53
19323706 TTACCCCACA
* * * * ** *
19323716 AGGGTATCTCGGTAATTCTACCCTACAGGGGTTTTTCGGT-ATTTCTACCCTACA
1 AGGGTATTTCAGTAATTCTACCCTAAAGGGGTATTTCGGTAATTT-TACAAT-CG
* * * * ** *
19323770 AGGGTATTTC-GATAATTCTATCCTACAGGGGTATTTCAGTAATTCTACCCTACA
1 AGGGTATTTCAG-TAATTCTACCCTAAAGGGGTATTTCGGTAATTTTACAAT-CG
* * * *
19323824 AGAGTATTTCGGTATTTCTACCCTACAA-GGGTATTTCGGT-ATTTCTATC-CTAC-
1 AGGGTATTTCAGTAATTCTACCCTA-AAGGGGTATTTCGGTAATTT-TA-CAAT-CG
* ** *
19323877 AGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGT-ATTTCTACCCTACA
1 A-GGGTATTTCAGTAATTCTACCCTAAAGGGGTATTTCGGTAATTT-TACAAT-CG
* * * * * *
19323932 AGGGTATTTCGGTATTTCTACCCTACAA-GGGTATTTCAGTAATTCTACCCTAT-A
1 AGGGTATTTCAGTAATTCTACCCTA-AAGGGGTATTTCGGTAATTTTA--CAATCG
*
19323986 AGGGTATTTCAGTAATTCTACCCTAAAGGGGTATTTCGGTAATTTTACAAATTG
1 AGGGTATTTCAGTAATTCTACCCTAAAGGGGTATTTCGGTAATTTTAC-AATCG
* * ** ** * *
19324040 AGGGTATTTTAGTAATTTTACAATCGA-CGGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTCTACCCTAAAGGGGTATTTCGGTAATTTTAC-AATCG
* ** ** *
19324093 AGGGTATTTCAGTAATTTTACAATTGA-CGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTCTACCCTAAAGGGGTATTTCGGTAATTTTAC-AATCG
* ** * * *
19324146 AGGATATTTGGGTAATTTTA---TAAATCGAGGTACTTT-GGTAATTTTACAATTG
1 AGGGTATTTCAGTAATTCTACCCTAAA--GGGGTA-TTTCGGTAATTTTACAATCG
* *
19324198 GGGGTATTTCCGTAATT
1 AGGGTATTTCAGTAATT
19324215 TGGTAAACTA
Statistics
Matches: 373, Mismatches: 51, Indels: 44
0.80 0.11 0.09
Matches are distributed among these distances:
50 2 0.01
52 18 0.05
53 116 0.31
54 224 0.60
55 11 0.03
56 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.38
Consensus pattern (53 bp):
AGGGTATTTCAGTAATTCTACCCTAAAGGGGTATTTCGGTAATTTTACAATCG
Found at i:19324056 original size:81 final size:81
Alignment explanation
Indices: 19323717--19324026 Score: 487
Period size: 81 Copynumber: 3.8 Consensus size: 81
19323707 TACCCCACAA
* * * * *
19323717 GGGTATCTCGGTAATTCTACCCTACAGGGGTTTTTCGGTATTTCTACCCTACAAGGGTATTTCGA
1 GGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGG
*
19323782 TAATTCTATCCTACAG
66 TATTTCTATCCTACAG
*
19323798 GGGTATTTCAGTAATTCTACCCTACAAGAGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGG
1 GGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGG
19323863 TATTTCTATCCTACAG
66 TATTTCTATCCTACAG
*
19323879 GGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGG
1 GGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGG
* *
19323944 TATTTCTACCCTACAA
66 TATTTCTATCCTACAG
* * *
19323960 GGGTATTTCAGTAATTCTACCCTATAAGGGTATTTCAGTAATTCTACCCTA-AAGGGGTATTTCG
1 GGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAA-GGGTATTTCG
19324024 GTA
65 GTA
19324027 ATTTTACAAA
Statistics
Matches: 213, Mismatches: 15, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
80 2 0.01
81 211 0.99
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (81 bp):
GGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGG
TATTTCTATCCTACAG
Found at i:19324080 original size:26 final size:25
Alignment explanation
Indices: 19324015--19324215 Score: 197
Period size: 26 Copynumber: 7.6 Consensus size: 25
19324005 ACCCTAAAGG
*
19324015 GGTATTTCGGTAATTTTACAAATTGA
1 GGTATTTCGGTAATTTTAC-AATCGA
**
19324041 GGGTATTTTAGTAATTTTACAATCGA
1 -GGTATTTCGGTAATTTTACAATCGA
*
19324067 CGGTATTTTGGTAATTTTACAAATCGA
1 -GGTATTTCGGTAATTTTAC-AATCGA
* *
19324094 GGGTATTTCAGTAATTTTACAATTGA
1 -GGTATTTCGGTAATTTTACAATCGA
19324120 CGGTATTTCGGTAATTTTACAAATCGA
1 -GGTATTTCGGTAATTTTAC-AATCGA
* *
19324147 GGATATTTGGGTAATTTTATAAATCGA
1 GG-TATTTCGGTAATTTTA-CAATCGA
* *
19324174 GGTACTTT-GGTAATTTTACAATTGGG
1 GGTA-TTTCGGTAATTTTACAA-TCGA
*
19324200 GGTATTTCCGTAATTT
1 GGTATTTCGGTAATTT
19324216 GGTAAACTAA
Statistics
Matches: 149, Mismatches: 18, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
25 5 0.03
26 73 0.49
27 71 0.48
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (25 bp):
GGTATTTCGGTAATTTTACAATCGA
Found at i:19324084 original size:53 final size:53
Alignment explanation
Indices: 19324015--19324215 Score: 264
Period size: 53 Copynumber: 3.8 Consensus size: 53
19324005 ACCCTAAAGG
* *
19324015 GGTATTTCGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTTACAATCGAC
1 GGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATCGAC
* *
19324068 GGTATTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATTGAC
1 GGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATCGAC
* ** *
19324121 GGTATTTCGGTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAATCGA-
1 GGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTA-CAATCGAC
* * *
19324174 GGTACTTT-GGTAATTTTAC-AATTGGGGGTATTTCCGTAATTT
1 GGTA-TTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTT
19324216 GGTAAACTAA
Statistics
Matches: 131, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
52 18 0.14
53 105 0.80
54 8 0.06
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (53 bp):
GGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATCGAC
Found at i:19332778 original size:40 final size:39
Alignment explanation
Indices: 19332723--19332967 Score: 343
Period size: 40 Copynumber: 6.2 Consensus size: 39
19332713 CAGATGATAA
*
19332723 CGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGT-ACTATA-TCCGGGCTAAGTCC
*
19332763 CGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGT-ACTATA-TCCGGGCTAAGTCC
19332803 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCC
19332843 CGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCC
19332883 CGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCC
* * * *
19332923 CGAAGGCATTTGAGCGAGTGGCTATATCC-GGTTAAATCC
1 CGAAGGCATTTGTGCGAGT-ACTATATCCGGGCTAAGTCC
19332962 CGAAGG
1 CGAAGG
19332968 TACTTGGTTT
Statistics
Matches: 196, Mismatches: 6, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
39 15 0.08
40 179 0.91
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (39 bp):
CGAAGGCATTTGTGCGAGTACTATATCCGGGCTAAGTCC
Found at i:19340851 original size:40 final size:40
Alignment explanation
Indices: 19340796--19341040 Score: 329
Period size: 40 Copynumber: 6.2 Consensus size: 40
19340786 CGGATGATAA
* * *
19340796 CGAAGGCATTTGTGCTAGTGGCTA-ATTCCGGGCTAAGTCT
1 CGAAGGCATTTGTGCGAGTGACTATA-TCCGGGCTAAGTCC
* *
19340836 CGAAGGCATTTGTGCTAGTGACTA-ATTCTGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTGACTATA-TCCGGGCTAAGTCC
*
19340876 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCC
19340916 CGAAGGCATTTGTGCGAGCT-ACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAG-TGACTATATCCGGGCTAAGTCC
19340956 CGAAGGCATTTGTGCGAGCT-ACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAG-TGACTATATCCGGGCTAAGTCC
* * * *
19340996 CGAAGGCATTTGAGCGAGTGGCTATATCC-GGTTAAATCC
1 CGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCC
19341035 CGAAGG
1 CGAAGG
19341041 TACTTGGTTT
Statistics
Matches: 192, Mismatches: 10, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
39 15 0.08
40 175 0.91
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.27
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCC
Found at i:19344016 original size:14 final size:13
Alignment explanation
Indices: 19343974--19344018 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 13
19343964 TTTTTTTCTA
19343974 TTTTCTTTTCTTT
1 TTTTCTTTTCTTT
19343987 TTCTTGCTTATTCTTT
1 TT-TT-CTT-TTCTTT
19344003 TTTTCTTGTTCTTT
1 TTTTCTT-TTCTTT
19344017 TT
1 TT
19344019 CTTTTGATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 2 0.07
14 13 0.46
15 5 0.18
16 8 0.29
ACGTcount: A:0.02, C:0.16, G:0.04, T:0.78
Consensus pattern (13 bp):
TTTTCTTTTCTTT
Found at i:19344023 original size:18 final size:18
Alignment explanation
Indices: 19343966--19344023 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
19343956 TTCCTCTCTT
*
19343966 TTTTTCTATTTTC-TTTTC
1 TTTTTCT-TGTTCTTTTTC
* *
19343984 TTTTTCTTGCTTATTCTT-
1 TTTTTCTTG-TTCTTTTTC
19344002 TTTTTCTTGTTCTTTTTC
1 TTTTTCTTGTTCTTTTTC
19344020 TTTT
1 TTTT
19344024 GATTTTTCTA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
17 7 0.22
18 22 0.69
19 3 0.09
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.78
Consensus pattern (18 bp):
TTTTTCTTGTTCTTTTTC
Found at i:19348708 original size:9 final size:9
Alignment explanation
Indices: 19348694--19348757 Score: 57
Period size: 9 Copynumber: 7.6 Consensus size: 9
19348684 GACACTTGAA
19348694 ATTAAACAC
1 ATTAAACAC
19348703 ATTAAA-AC
1 ATTAAACAC
*
19348711 A-T--ACAT
1 ATTAAACAC
19348717 ATTAAACAC
1 ATTAAACAC
19348726 ATTTAAACAC
1 A-TTAAACAC
*
19348736 ATAAAACAC
1 ATTAAACAC
*
19348745 ATGAAACAC
1 ATTAAACAC
19348754 -TTAA
1 ATTAA
19348758 CTTAAATAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
5 1 0.02
6 2 0.04
7 2 0.04
8 6 0.13
9 25 0.56
10 9 0.20
ACGTcount: A:0.56, C:0.19, G:0.02, T:0.23
Consensus pattern (9 bp):
ATTAAACAC
Found at i:19348841 original size:19 final size:19
Alignment explanation
Indices: 19348814--19348960 Score: 85
Period size: 19 Copynumber: 8.1 Consensus size: 19
19348804 TTATTCCAGC
*
19348814 AACTAAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
*
19348833 AACTTAATTAACTAACATG
1 AACTTAATTAACTAAGATG
* * * *
19348852 AA--TAATTTATTCCAG--C
1 AACTTAATTAACT-AAGATG
19348868 AACTTAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
* *
19348887 AACTCAATTAACTATGAT-
1 AACTTAATTAACTAAGATG
* * * * *
19348905 AA-GTAATTTATTCCAG--C
1 AACTTAATTAACT-AAGATG
19348922 AACTTAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
* *
19348941 AACTCAATTAACTATGATG
1 AACTTAATTAACTAAGATG
19348960 A
1 A
19348961 GTAATTTATT
Statistics
Matches: 92, Mismatches: 26, Indels: 20
0.67 0.19 0.14
Matches are distributed among these distances:
16 2 0.02
17 19 0.21
18 18 0.20
19 53 0.58
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (19 bp):
AACTTAATTAACTAAGATG
Found at i:19348862 original size:54 final size:54
Alignment explanation
Indices: 19348804--19348982 Score: 288
Period size: 54 Copynumber: 3.3 Consensus size: 54
19348794 CATCATTAAA
* * **
19348804 TTATTCCAGCAACTAAATTAACTAAGATGAACTTAATTAACTAACATGAATAAT
1 TTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACTATGATGAATAAT
19348858 TTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACTATGAT-AAGTAAT
1 TTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACTATGATGAA-TAAT
*
19348912 TTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACTATGATGAGTAAT
1 TTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACTATGATGAATAAT
*
19348966 TTATTCCAACAACTTAA
1 TTATTCCAGCAACTTAA
19348983 CTAATTAAAC
Statistics
Matches: 117, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
53 2 0.02
54 114 0.97
55 1 0.01
ACGTcount: A:0.43, C:0.16, G:0.08, T:0.33
Consensus pattern (54 bp):
TTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACTATGATGAATAAT
Found at i:19360262 original size:43 final size:42
Alignment explanation
Indices: 19360179--19360332 Score: 157
Period size: 43 Copynumber: 3.6 Consensus size: 42
19360169 CTGAGATATT
* * * *
19360179 GTGTAAGACCATGTCTGGGGCACCGGCCTCGATTGAGATTTAC
1 GTGTAAGACCATGTCTGGGACATCGGCATCGATT-TGATTTAC
* *
19360222 GTATAAGACCATGTCTGGGACATCGGCATCCTATTTGATTT-C
1 GTGTAAGACCATGTCTGGGACATCGGCAT-CGATTTGATTTAC
* * ** *
19360264 GTGTAAGACCCTGTCTGGGATAGAGGCATCGATATTGAATTAC
1 GTGTAAGACCATGTCTGGGACATCGGCATCGAT-TTGATTTAC
* *
19360307 ATGTAAGACCATGTCCGGGACATCGG
1 GTGTAAGACCATGTCTGGGACATCGG
19360333 TATTGTGCTT
Statistics
Matches: 89, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
41 3 0.03
42 31 0.35
43 51 0.57
44 4 0.04
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACATCGGCATCGATTTGATTTAC
Found at i:19366556 original size:27 final size:27
Alignment explanation
Indices: 19366526--19366608 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 27
19366516 ATCTCATATC
* *
19366526 TGTAGGCTAGCATTACTGAAATACCCT
1 TGTAGGGTAGAATTACTGAAATACCCT
*
19366553 TGTAGGGTAGAATTACTGAAATACCCC
1 TGTAGGGTAGAATTACTGAAATACCCT
* **
19366580 TATAGGGTAGAATTACCAAAATACCCT
1 TGTAGGGTAGAATTACTGAAATACCCT
19366607 TG
1 TG
19366609 GTTTATAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (27 bp):
TGTAGGGTAGAATTACTGAAATACCCT
Found at i:19366620 original size:27 final size:27
Alignment explanation
Indices: 19366590--19366686 Score: 122
Period size: 27 Copynumber: 3.6 Consensus size: 27
19366580 TATAGGGTAG
*
19366590 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCCTGGTTTATAA
*
19366617 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTATAA
* * * *
19366644 AATTACCAAAATACCTCTGATTTGTGA
1 AATTACCAAAATACCCCTGGTTTATAA
**
19366671 AATTACTGAAATACCC
1 AATTACCAAAATACCC
19366687 TCGACTTGTA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGGTTTATAA
Found at i:19366621 original size:54 final size:54
Alignment explanation
Indices: 19366563--19366686 Score: 135
Period size: 54 Copynumber: 2.3 Consensus size: 54
19366553 TGTAGGGTAG
* *
19366563 AATTACTGAAATACCCCT-ATAGGGTAGAATTACCAAAATACC-CTTGGTTTATAA
1 AATTACTGAAATACCCCTGAT-GGGTAAAATTACCAAAATACCTC-TGATTTATAA
** * ** * *
19366617 AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCTCTGATTTGTGA
1 AATTACTGAAATACCCCTGATGGGTAAAATTACCAAAATACCTCTGATTTATAA
19366671 AATTACTGAAATACCC
1 AATTACTGAAATACCC
19366687 TCGACTTGTA
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
54 55 0.96
55 2 0.04
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (54 bp):
AATTACTGAAATACCCCTGATGGGTAAAATTACCAAAATACCTCTGATTTATAA
Found at i:19366695 original size:27 final size:27
Alignment explanation
Indices: 19366638--19366744 Score: 128
Period size: 27 Copynumber: 4.0 Consensus size: 27
19366628 TACCCCTGGT
** *
19366638 TTGTAAAATTACCAAAATA-CCTCTGAT
1 TTGTAAAATTACTGAAATACCCTC-GAC
*
19366665 TTGTGAAATTACTGAAATACCCTCGAC
1 TTGTAAAATTACTGAAATACCCTCGAC
*
19366692 TTGTAAAATTACTGAAATACCCTCAAC
1 TTGTAAAATTACTGAAATACCCTCGAC
*
19366719 TTGTAAAATTA-TCAAAGTACCCTCGA
1 TTGTAAAATTACTGAAA-TACCCTCGA
19366745 TTTACAGAAT
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
26 4 0.06
27 62 0.89
28 4 0.06
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (27 bp):
TTGTAAAATTACTGAAATACCCTCGAC
Found at i:19366696 original size:54 final size:54
Alignment explanation
Indices: 19366590--19366783 Score: 137
Period size: 54 Copynumber: 3.6 Consensus size: 54
19366580 TATAGGGTAG
* **
19366590 AATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGATTTATAAAATTACCAAAATACCCCTGACTTGTAA
* * **
19366644 AATTACCAAAATA-CCTCTGATTTGTGAAATTACTGAAATA-CCCTCGACTTGTAA
1 AATTACCAAAATACCCT-TGATTTATAAAATTACCAAAATACCCCT-GACTTGTAA
** ** * * * *
19366698 AATTACTGAAATACCCTCAACTTGTAAAATTATCAAAGTA-CCCTCGA-TT-TACA
1 AATTACCAAAATACCCTTGATTTATAAAATTACCAAAATACCCCT-GACTTGTA-A
*** *
19366751 GAATTACCATTTTACCCTTGATTTACAAAATTA
1 -AATTACCAAAATACCCTTGATTTATAAAATTA
19366784 TCATTTTACC
Statistics
Matches: 108, Mismatches: 27, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
52 2 0.02
53 10 0.09
54 93 0.86
55 3 0.03
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (54 bp):
AATTACCAAAATACCCTTGATTTATAAAATTACCAAAATACCCCTGACTTGTAA
Found at i:19366755 original size:27 final size:27
Alignment explanation
Indices: 19366736--19367091 Score: 355
Period size: 27 Copynumber: 13.2 Consensus size: 27
19366726 ATTATCAAAG
* *
19366736 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTATCATTT
*
19366763 TACCCTTGATTTACAAAATTATCATTT
1 TACCCTCGATTTACAAAATTATCATTT
*
19366790 TACCCTCGATTTACAAAATT-GCTATTT
1 TACCCTCGATTTACAAAATTATC-ATTT
* * * *
19366817 TACCCTCAATTTATAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCATTT
* * * *
19366844 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTATCATTT
* *
19366871 AACCCTCGATTTACAGAATTA-CTATTT
1 TACCCTCGATTTACAAAATTATC-ATTT
* *
19366898 TACCATTGATTTACAAAATTA-CTATTT
1 TACCCTCGATTTACAAAATTATC-ATTT
* *
19366925 TACCCTTGATTTACAAAATTA-CTGTTT
1 TACCCTCGATTTACAAAATTATC-ATTT
* * *
19366952 TACCCTCGATCTATAGAATTA-CTATTT
1 TACCCTCGATTTACAAAATTATC-ATTT
19366979 TACCCTCGATTTACAAAATTA-CTATTT
1 TACCCTCGATTTACAAAATTATC-ATTT
* *
19367006 TATCCTCGATTTACAGAATTATCATTT
1 TACCCTCGATTTACAAAATTATCATTT
* * * *
19367033 TACCATCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTATCATTT
* *
19367060 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTATCATTT
19367087 TACCC
1 TACCC
19367092 CTAGGGTGTT
Statistics
Matches: 286, Mismatches: 39, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
26 2 0.01
27 282 0.99
28 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTATCATTT
Found at i:19366784 original size:54 final size:53
Alignment explanation
Indices: 19366736--19367091 Score: 406
Period size: 54 Copynumber: 6.6 Consensus size: 53
19366726 ATTATCAAAG
*
19366736 TACCCTCGATTTACAGAATTACCATTTTACCCTTGATTTACAAAATTATCATTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTA-CATTT
* * * * * * *
19366790 TACCCTCGATTTACAAAATTGCTATTTTACCCTCAATTTATAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTA-CATTT
* * * *
19366844 TACCCTCGATTTATAGAATTACCGTTTAACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTAC-ATTT
* * * * * *
19366898 TACCATTGATTTACAAAATTACTATTTTACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTAC-ATTT
* * *
19366952 TACCCTCGATCTATAGAATTACTATTTTACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTAC-ATTT
* * * * *
19367006 TATCCTCGATTTACAGAATTATCATTTTACCATCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTA-CATTT
* *
19367060 TACCCTCGATTTATAAAATTACCATTTTACCC
1 TACCCTCGATTTACAGAATTACCATTTTACCC
19367092 CTAGGGTGTT
Statistics
Matches: 253, Mismatches: 47, Indels: 4
0.83 0.15 0.01
Matches are distributed among these distances:
53 1 0.00
54 251 0.99
55 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (53 bp):
TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACATTT
Done.